From 753df4870f81fb269f0f49719f82ba5a6cadce8a Mon Sep 17 00:00:00 2001 From: Don Armstrong Date: Wed, 19 Aug 2015 17:03:11 -0500 Subject: [PATCH] sort and add missing genes to the list of imporinted genes --- Makefile | 5 +- combine_imprinted_genes.R | 17 +- imprinted_genes.txt | 316 +++++++++-------- imprinted_genes_information.txt | 586 ++++++++++++++++---------------- 4 files changed, 467 insertions(+), 457 deletions(-) diff --git a/Makefile b/Makefile index 18dfbad..193e28d 100644 --- a/Makefile +++ b/Makefile @@ -3,6 +3,8 @@ R=R ROPTS=-q --no-save --no-restore-data +all: imprinted_genes_information.txt + geneimprint_human.html: wget -O $@ "http://www.geneimprint.com/site/genes-by-species.Homo+sapiens" @@ -16,7 +18,8 @@ geneimprint_human.txt: geneimprint_human.html parse_geneimprint.pl parent_of_origin.txt: parent_of_origin.html parse_parent_of_origin.pl ./parse_parent_of_origin.pl $< > $@ -imprinted_genes.txt: combine_imprinted_genes.R geneimprint_human.txt parent_of_origin.txt +imprinted_genes.txt: combine_imprinted_genes.R geneimprint_human.txt \ + parent_of_origin.txt gene_aliases.txt $(R) $(ROPTS) -f $< --args $(wordlist 2,$(words $^),$^) $@ imprinted_genes_information.txt: imprinted_genes.txt diff --git a/combine_imprinted_genes.R b/combine_imprinted_genes.R index 782da8e..7b75d52 100644 --- a/combine_imprinted_genes.R +++ b/combine_imprinted_genes.R @@ -3,6 +3,7 @@ library(data.table) args <- commandArgs(trailingOnly=TRUE) geneimprint <- fread(args[1]) +geneimprint <- geneimprint[!grepl(" ",Gene),] parent <- fread(args[2]) ### fix up the 0 prefixed chromosomes parent[,chr:=gsub("^0","",chromosome)] @@ -12,11 +13,25 @@ parent[,Gene:=gsub("\\s*\\([^\\)]+\\)\\s*","",gene)] parent[,Gene:=gsub("\\s*,\\s*.+","",Gene)] parent <- parent[grepl("^[A-Z0-9]+$",Gene),] + + setkey(parent,"Gene") setkey(geneimprint,"Gene") imprinted.genes <- - union(parent[,Gene],geneimprint[,Gene]) + union(gsub("[\\*\\@]$","",parent[,Gene]), + gsub("[\\*\\@]$","",geneimprint[,Gene])) + +gene.aliases <- fread(args[3]) +setkey(gene.aliases,"alias") + +imprinted.genes <- + sort(sapply(imprinted.genes, + function(x){if(is.na(gene.aliases[x,gene])) { + return(x) + } else { + return(gene.aliases[x,gene]) + }})) write.table(file=args[length(args)], imprinted.genes, diff --git a/imprinted_genes.txt b/imprinted_genes.txt index 65c1491..80012f5 100644 --- a/imprinted_genes.txt +++ b/imprinted_genes.txt @@ -1,31 +1,56 @@ +ABCC9 +ABCG8 +ACD +ADAMTS16 AIM1 +ALDH1L1 AMPD3 ANO1 +APBA1 APC -APS ASB4 ASCL2 +ATP10A ATXN7 -AWT1 +ATXN8OS +B4GALNT4 BDNF BEGAIN BLCAP +BMP8B BRD2 +BTNL2 +C10orf91 C19MC +C9orf116 +C9orf85 CALCR CASD1 +CCDC85A CD44 CD81 +CDH18 +CDK4 CDKN1C +CELF4 +CFAP46 +CHMP2A +CHST8 CNTNAP2 +COL9A3 COMMD1 COPG2 COPG2IT1 CPA4 +CSF2 CTNNA3 +CYP1B1 DCN DDC +DGCR6 +DGCR6L DHCR7 +DHRS12 DIO3 DIRAS3 DLGAP2 @@ -33,96 +58,199 @@ DLK1 DLX5 DNMT1 DSCR3 +DVL1 +E2F7 +EGFL7 EPS15 -FLJ13639 +EVX1 +FAM50B +FASTK +FBRSL1 +FBRSL1 +FERMT2 +FGFRL1 +FOXF1 +FOXG1 +FUCA1 GAB1 +GABRA5 GABRB3 +GABRG3 +GAREM +GATA3 +GATM +GDAP1L1 +GFI1 +GLI3 +GLIS3 GNAL -GNAS1 +GNAS +GNAS +GNAS-AS1 +GNAS-AS1 GNGT1 GPR1 +GPT GRB10 H19 H73492 +HES1 HFE +HIST3H2BB HM13 +HOXA11 +HOXA2 +HOXA3 +HOXA4 +HOXA5 +HOXB2 +HOXB3 +HOXC4 +HOXC9 +HSPA6 HTR2A HYMAI -IDDM10 IDDM8 +IFITM1 IGF2 -IGF2AS +IGF2-AS IGF2R +IL2RA IL4R IMPACT INPP5F INS -ITUP1 +IRAIN +ISM1 +ISM1 +KBTBD3 +KCNK9 KCNK9 KCNQ1 KCNQ1DN KCNQ1OT1 KLF14 +KLK3 L211 -L3MBTL +L3MBTL1 +LDB1 LGALS14 LGALS8 +LILRB4 LIN28B +LINC01521 +LMX1B +LOC100131170 LRRTM1 +LY6D MAGEL2 MAGI2 MAS1 +MCTS2P +MCTS2P MEG3 MEG8 MEST MESTIT1 +MIMT1 +MIMT1 +MIR184 +MIR296 +MIR298 +MIR371A MIR483 MKRN3 +MKRN3-AS1 +MPC1 +MRAP2 +MRAP2 +MRGBP MS4A2 MYCN +MYEOV2 +MZF1 NAA60 +NAP1L4 NAP1L5 NDN +NDUFA4P1 NDUFAF4 +NKAIN3 +NKX6-2 NLRP2 NNAT NPAP1 NTM +OBSCN +OR11L1 OSBPL1A OSBPL5 +OTX1 +PAOX PAPPA2 PDGFC PEG10 PEG3 +PEX10 PHACTR2 PHF11 PHLDA2 +PHPT1 +PKP3 PLAGL1 PON1 PON2 PON3 +PPAP2C PPP1R9A +PRDM16 PRIM2 +PRR20A +PTPN14 +PURG PWRN1 PWRN2 +PYY2 +RAB1B RASGRF1 RASSF1 RB1 +RBP5 RHOBTB3 +RNU5D-1 +RPL22 RTL1 +SALL1 SBK1 -SCA8 SDHD SFMBT2 SFRP2 SGCE +SGK2 +SIM2 +SLC22A18 SLC22A18AS SLC22A2 SLC22A3 +SLC26A10 SLC38A4 +SLC4A2 SMPD1 +SNORD107 +SNORD108 +SNORD109A +SNORD109B +SNORD115 +SNORD115-48 +SNORD116 +SNORD116 +SNORD64 +SNRPN SNURF +SOX8 +SPATA31D1 SPINK5 +SPON2 SPTLC3 STOX1 TCEB3C @@ -130,174 +258,42 @@ TCOF1 TFPI2 TGFB3 TH +TIGD1 +TMEM255B +TMEM52 +TMEM60 +TMEM88 TP73 TRPM5 +TSHZ3 +TSIX TSPAN32 TSPEAR TSSC4 -U2AF1L1 UBE3A -UPD +UROD +USB1 USP29 -W89101 -WIF1 -ZFAT -ZNF215 -ZNF331 -ZNF597 -ABCC9 -ABCG8 -ACD -ADAMTS16 -ALDH1L1 -APBA1 -ATP10A -B4GALNT4 -BMP8B -BRP44L -BRUNOL4 -BTNL2 -C10orf91 -C10orf93 -C16orf57 -C20orf20 -C20orf82 -C6orf117 -C9orf116 -C9orf85 -CCDC85A -CDH18 -CDK4 -CHMP2A -CHST8 -COL9A3 -CSF2 -CYP1B1 -DGCR6 -DGCR6L -DVL1 -E2F7 -EGFL7 -EVX1 -FAM50B -FAM59A -FAM70B -FASTK -FBRSL1 -FERMT2 -FGFRL1 -FLJ20464 -FLJ40296 -FLJ46321 -FOXF1 -FOXG1 -FUCA1 -GABRA5 -GABRG3 -GATA3 -GATM -GDAP1L1 -GFI1 -GLI3 -GLIS3 -GNAS -GNASAS -GPT -HES1 -HIST3H2BB -HOXA11 -HOXA2 -HOXA3 -HOXA4 -HOXA5 -HOXB2 -HOXB3 -HOXC4 -HOXC9 -HSPA6 -IFITM1 -INPP5F V2 -IRAIN -ISM1 -KBTBD3 -KIAA1530 -KIAA1545 -LDB1 -LILRB4 -LMX1B -LOC100131170 -LY6D -MCTS2 -MIMT1 -MIR184 -MIR296 -MIR298 -MIR371A -MRAP2 -MYEOV2 -MZF1 -NAP1L4 -NDUFA4P1 -NKAIN3 -NKX6-2 -OBSCN -OR11L1 -OTX1 -PAOX -PEG13 -PEX10 -PHPT1 -PKP3 -PPAP2C -PRDM16 -PSIMCT-1 -PTPN14 -PURG -PWCR1 -PYY2 -RAB1B -RBP5 -RNU5D-1 -RPL22 -SALL1 -SANG -SGK2 -SIM2 -SLC22A18 -SLC22A2* -SLC22A3* -SLC26A10 -SLC4A2 -SNORD107 -SNORD108 -SNORD109A -SNORD109B -SNORD115-48 -SNORD115@ -SNORD116@ -SNORD64 -SNRPN -SOX8 -SPON2 -TIGD1 -TMEM52 -TMEM60 -TMEM88 -TSHZ3 -TSIX +UVSSA VAX2 VENTX -WDR8 -WT1-Alt trans +W89101 +WIF1 +WRAP73 +WT1 XIST ZC3H12C ZDBF2 +ZFAT ZFAT-AS1 ZFP36L2 ZIC1 ZIM2 ZIM3 -ZNF127AS +ZNF215 ZNF225 ZNF229 ZNF264 +ZNF331 +ZNF597 +ZRSR1 diff --git a/imprinted_genes_information.txt b/imprinted_genes_information.txt index 505a982..ae3e1ba 100644 --- a/imprinted_genes_information.txt +++ b/imprinted_genes_information.txt @@ -1,304 +1,300 @@ gene chr ideogram complement start stop name -AIM1 6 6q21 0 106959730 107018335 absent in melanoma 1 -AMPD3 11 11p15.4 0 10471868 10529126 adenosine monophosphate deaminase 3 -ANO1 11 11q13.3 0 69924408 70035651 anoctamin 1, calcium activated chloride channel -APC 5 5q22.2 0 112043202 112181936 adenomatous polyposis coli -APS NA NA NA NA NA NA -ASB4 7 7q21.3 0 95115213 95169543 ankyrin repeat and SOCS box containing 4 -ASCL2 11 11p15.5 1 2289728 2292182 achaete-scute complex homolog 2 (Drosophila) -ATXN7 3 3p14.1 0 63850233 63989138 ataxin 7 -AWT1 NA NA NA NA NA NA -BDNF 11 11p14.1 1 27676440 27743605 brain-derived neurotrophic factor -BEGAIN 14 14q32.2 1 101003484 101036131 brain-enriched guanylate kinase-associated homolog (rat) -BLCAP 20 20q11.23 1 36145819 36156333 bladder cancer associated protein -BRD2 6 6p21.32 0 32936437 32949282 bromodomain containing 2 +ABCC9 12 12p12.1 - 21950335 22094336 ATP-binding cassette, sub-family C (CFTR/MRP), member 9 +ABCG8 2 2p21 + 44066103 44105605 ATP-binding cassette, sub-family G (WHITE), member 8 +ACD 16 16q22.1 - 67691415 67694713 adrenocortical dysplasia homolog (mouse) +ADAMTS16 5 5p15.32 + 5140443 5320417 ADAM metallopeptidase with thrombospondin type 1 motif, 16 +AIM1 6 6q21 + 106959730 107018326 absent in melanoma 1 +ALDH1L1 3 3q21.3 - 125822412 125916837 aldehyde dehydrogenase 1 family, member L1 +AMPD3 11 11p15.4 + 10329860 10529126 adenosine monophosphate deaminase 3 +ANO1 11 11q13.3 + 69924408 70035634 anoctamin 1, calcium activated chloride channel +APBA1 9 9q21.11 - 72042446 72287222 amyloid beta (A4) precursor protein-binding, family A, member 1 +APC 5 5q22.2 + 112043195 112181936 adenomatous polyposis coli +ASB4 7 7q21.3 + 95107756 95169544 ankyrin repeat and SOCS box containing 4 +ASCL2 11 11p15.5 - 2289725 2292182 achaete-scute complex homolog 2 (Drosophila) +ATP10A 15 15q12 - 25922420 26110317 ATPase, class V, type 10A +ATXN7 3 3p14.1 + 63850233 63989138 ataxin 7 +ATXN8OS 13 13q21.33 + 70681345 70713561 ATXN8 opposite strand (non-protein coding) +B4GALNT4 11 11p15.5 + 369796 382116 beta-1,4-N-acetyl-galactosaminyl transferase 4 +BDNF 11 11p14.1 - 27676440 27743605 brain-derived neurotrophic factor +BEGAIN 14 14q32.2 - 101003486 101053750 brain-enriched guanylate kinase-associated homolog (rat) +BLCAP 20 20q11.23 - 36120874 36156333 bladder cancer associated protein +BMP8B 1 1p34.2 - 40222854 40254533 bone morphogenetic protein 8b +BRD2 6 6p21.32 + 32936437 32949282 bromodomain containing 2 +BTNL2 6 6p21.32 - 32361740 32374905 butyrophilin-like 2 (MHC class II associated) +C10orf91 10 10q26.3 + 134257831 134262912 chromosome 10 open reading frame 91 C19MC NA NA NA NA NA NA -CALCR 7 7q21.3 1 93053799 93204042 calcitonin receptor -CASD1 7 7q21.3 0 94139170 94186331 CAS1 domain containing 1 -CD44 11 11p13 0 35160417 35253949 CD44 molecule (Indian blood group) -CD81 11 11p15.5 0 2398547 2418649 CD81 molecule -CDKN1C 11 11p15.4 1 2904448 2906995 cyclin-dependent kinase inhibitor 1C (p57, Kip2) -CNTNAP2 7 7q35 0 145813453 148118090 contactin associated protein-like 2 -COMMD1 2 2p15 0 62132803 62363205 copper metabolism (Murr1) domain containing 1 -COPG2 7 7q32.2 1 130146079 130353598 coatomer protein complex, subunit gamma 2 -COPG2IT1 NA NA NA NA NA NA -CPA4 7 7q32.2 0 129932974 129964020 carboxypeptidase A4 -CTNNA3 10 10q21.3 1 67679725 69455949 catenin (cadherin-associated protein), alpha 3 -DCN 12 12q21.33 1 91539035 91576806 decorin -DDC 7 7p12.1 1 50526134 50633154 dopa decarboxylase (aromatic L-amino acid decarboxylase) -DHCR7 11 11q13.4 1 71145457 71159477 7-dehydrocholesterol reductase -DIO3 14 14q32.31 0 102027688 102029789 deiodinase, iodothyronine, type III -DIRAS3 1 1p31.3 1 68511645 68516460 DIRAS family, GTP-binding RAS-like 3 -DLGAP2 8 8p23.3 0 1449569 1656642 discs, large (Drosophila) homolog-associated protein 2 -DLK1 14 14q32.2 0 101193202 101201467 delta-like 1 homolog (Drosophila) -DLX5 7 7q21.3 1 96649702 96654143 distal-less homeobox 5 -DNMT1 19 19p13.2 1 10244022 10305755 DNA (cytosine-5-)-methyltransferase 1 -DSCR3 21 21q22.13 1 38595726 38639833 Down syndrome critical region gene 3 -EPS15 1 1p32.3 1 51819935 51984995 epidermal growth factor receptor pathway substrate 15 -FLJ13639 NA NA NA NA NA NA -GAB1 4 4q31.21 0 144257983 144395718 GRB2-associated binding protein 1 -GABRB3 15 15q12 1 26788693 27018935 gamma-aminobutyric acid (GABA) A receptor, beta 3 -GNAL 18 18p11.21 0 11689136 11883144 guanine nucleotide binding protein (G protein), alpha activating activity polypeptide, olfactory type -GNAS1 NA NA NA NA NA NA -GNGT1 7 7q21.3 0 93535820 93540485 guanine nucleotide binding protein (G protein), gamma transducing activity polypeptide 1 -GPR1 2 2q33.3 1 207040040 207082771 G protein-coupled receptor 1 -GRB10 7 7p12.1 1 50657760 50861159 growth factor receptor-bound protein 10 -H19 NA NA NA NA NA NA +C9orf116 9 9q34.3 - 138387027 138393580 chromosome 9 open reading frame 116 +C9orf85 9 9q21.13 + 74526426 74600970 chromosome 9 open reading frame 85 +CALCR 7 7q21.3 - 93053799 93204042 calcitonin receptor +CASD1 7 7q21.3 + 94138531 94186331 CAS1 domain containing 1 +CCDC85A 2 2p16.1 + 56411258 56613308 coiled-coil domain containing 85A +CD44 11 11p13 + 35160417 35253949 CD44 molecule (Indian blood group) +CD81 11 11p15.5 + 2397407 2418649 CD81 molecule +CDH18 5 5p14.3 - 19473060 20575982 cadherin 18, type 2 +CDK4 12 12q14.1 - 58141510 58149796 cyclin-dependent kinase 4 +CDKN1C 11 11p15.4 - 2904443 2907111 cyclin-dependent kinase inhibitor 1C (p57, Kip2) +CELF4 18 18q12.2 - 34823010 35146000 CUGBP, Elav-like family member 4 +CFAP46 NA NA NA NA NA NA +CHMP2A 19 19q13.43 - 59062933 59066491 charged multivesicular body protein 2A +CHST8 19 19q13.11 + 34112861 34264414 carbohydrate (N-acetylgalactosamine 4-0) sulfotransferase 8 +CNTNAP2 7 7q35 + 145813453 148118090 contactin associated protein-like 2 +COL9A3 20 20q13.33 + 61447596 61472511 collagen, type IX, alpha 3 +COMMD1 2 2p15 + 62115859 62374382 copper metabolism (Murr1) domain containing 1 +COPG2 7 7q32.2 - 130146089 130353598 coatomer protein complex, subunit gamma 2 +COPG2IT1 HG1308_PATCH NA + 130207103 130210545 COPG2 imprinted transcript 1 (non-protein coding) +CPA4 7 7q32.2 + 129932974 129964020 carboxypeptidase A4 +CSF2 5 5q31.1 + 131409483 131411859 colony stimulating factor 2 (granulocyte-macrophage) +CTNNA3 10 10q21.3 - 67672276 69455927 catenin (cadherin-associated protein), alpha 3 +CYP1B1 2 2p22.2 - 38294116 38337044 cytochrome P450, family 1, subfamily B, polypeptide 1 +DCN 12 12q21.33 - 91539025 91576900 decorin +DDC 7 7p12.1 - 50526134 50633154 dopa decarboxylase (aromatic L-amino acid decarboxylase) +DGCR6 22 22q11.21 + 18893541 18901751 DiGeorge syndrome critical region gene 6 +DGCR6L 22 22q11.21 - 20301799 20307603 DiGeorge syndrome critical region gene 6-like +DHCR7 11 11q13.4 - 71139239 71163914 7-dehydrocholesterol reductase +DHRS12 13 13q14.3 - 52342129 52378293 dehydrogenase/reductase (SDR family) member 12 +DIO3 14 14q32.31 + 102027688 102029789 deiodinase, iodothyronine, type III +DIRAS3 1 1p31.3 - 68511645 68517314 DIRAS family, GTP-binding RAS-like 3 +DLGAP2 8 8p23.3 + 1449532 1656642 discs, large (Drosophila) homolog-associated protein 2 +DLK1 14 14q32.2 + 101192042 101201539 delta-like 1 homolog (Drosophila) +DLX5 7 7q21.3 - 96649704 96654409 distal-less homeobox 5 +DNMT1 19 19p13.2 - 10244021 10341962 DNA (cytosine-5-)-methyltransferase 1 +DSCR3 21 21q22.13 - 38595721 38640262 Down syndrome critical region gene 3 +DVL1 1 1p36.33 - 1270656 1284730 dishevelled, dsh homolog 1 (Drosophila) +E2F7 12 12q21.2 - 77415027 77459360 E2F transcription factor 7 +EGFL7 9 9q34.3 + 139553308 139567130 EGF-like-domain, multiple 7 +EPS15 1 1p32.3 - 51819935 51985000 epidermal growth factor receptor pathway substrate 15 +EVX1 7 7p15.2 + 27282164 27290112 even-skipped homeobox 1 +FAM50B 6 6p25.2 + 3849620 3851551 family with sequence similarity 50, member B +FASTK 7 7q36.1 - 150773711 150777953 Fas-activated serine/threonine kinase +FBRSL1 12 12q24.33 + 133066137 133161774 fibrosin-like 1 +FBRSL1 12 12q24.33 + 133066137 133161774 fibrosin-like 1 +FERMT2 14 14q22.1 - 53323986 53419153 fermitin family member 2 +FGFRL1 4 4p16.3 + 1003724 1020685 fibroblast growth factor receptor-like 1 +FOXF1 16 16q24.1 + 86544133 86548076 forkhead box F1 +FOXG1 14 14q12 + 29235050 29238870 forkhead box G1 +FUCA1 1 1p36.11 - 24171567 24194784 fucosidase, alpha-L- 1, tissue +GAB1 4 4q31.21 + 144257915 144395721 GRB2-associated binding protein 1 +GABRA5 15 15q12 + 27111510 27194354 gamma-aminobutyric acid (GABA) A receptor, alpha 5 +GABRB3 15 15q12 - 26788693 27184686 gamma-aminobutyric acid (GABA) A receptor, beta 3 +GABRG3 15 15q12 + 27216429 27778373 gamma-aminobutyric acid (GABA) A receptor, gamma 3 +GAREM 18 18q12.1 - 29704840 30050447 NA +GATA3 10 10p14 + 8095567 8117161 GATA binding protein 3 +GATM 15 15q21.1 - 45653322 45694525 glycine amidinotransferase (L-arginine:glycine amidinotransferase) +GDAP1L1 20 20q13.12 + 42875887 42909013 ganglioside induced differentiation associated protein 1-like 1 +GFI1 1 1p22.1 - 92940319 92952433 growth factor independent 1 transcription repressor +GLI3 7 7p14.1 - 42000548 42277469 GLI family zinc finger 3 +GLIS3 9 9p24.2 - 3824127 4348392 GLIS family zinc finger 3 +GNAL 18 18p11.21 + 11688955 11885684 guanine nucleotide binding protein (G protein), alpha activating activity polypeptide, olfactory type +GNAS 20 20q13.32 + 57414773 57486247 GNAS complex locus +GNAS 20 20q13.32 + 57414773 57486247 GNAS complex locus +GNAS-AS1 20 20q13.32 - 57393974 57425958 GNAS antisense RNA 1 (non-protein coding) +GNAS-AS1 20 20q13.32 - 57393974 57425958 GNAS antisense RNA 1 (non-protein coding) +GNGT1 7 7q21.3 + 93220885 93540577 guanine nucleotide binding protein (G protein), gamma transducing activity polypeptide 1 +GPR1 2 2q33.3 - 207040040 207082771 G protein-coupled receptor 1 +GPT 8 8q24.3 + 145728356 145732557 glutamic-pyruvate transaminase (alanine aminotransferase) +GRB10 7 7p12.1 - 50657760 50861159 growth factor receptor-bound protein 10 +H19 11 11p15.5 - 2016406 2022700 H19, imprinted maternally expressed transcript (non-protein coding) H73492 NA NA NA NA NA NA -HFE 6 6p22.2 0 26087509 26095469 hemochromatosis -HM13 20 20q11.21 0 30102241 30157370 histocompatibility (minor) 13 -HTR2A 13 13q14.2 1 47407513 47471169 5-hydroxytryptamine (serotonin) receptor 2A, G protein-coupled +HES1 3 3q29 + 193853934 193856521 hairy and enhancer of split 1, (Drosophila) +HFE 6 6p22.2 + 26087509 26098571 hemochromatosis +HIST3H2BB 1 1q42.13 + 228645808 228646259 histone cluster 3, H2bb +HM13 20 20q11.21 + 30102231 30157370 histocompatibility (minor) 13 +HOXA11 7 7p15.2 - 27221129 27224842 homeobox A11 +HOXA2 7 7p15.2 - 27139721 27142430 homeobox A2 +HOXA3 7 7p15.2 - 27145803 27192200 homeobox A3 +HOXA4 7 7p15.2 - 27168126 27170418 homeobox A4 +HOXA5 7 7p15.2 - 27180671 27183287 homeobox A5 +HOXB2 17 17q21.32 - 46618256 46623441 homeobox B2 +HOXB3 17 17q21.32 - 46626232 46682274 homeobox B3 +HOXC4 12 12q13.13 + 54410715 54449813 homeobox C4 +HOXC9 12 12q13.13 + 54388679 54397121 homeobox C9 +HSPA6 1 1q23.3 + 161494036 161496681 heat shock 70kDa protein 6 (HSP70B') +HTR2A 13 13q14.2 - 47405685 47471169 5-hydroxytryptamine (serotonin) receptor 2A, G protein-coupled HYMAI NA NA NA NA NA NA -IDDM10 NA NA NA NA NA NA IDDM8 NA NA NA NA NA NA -IGF2 11 11p15.5 1 2150347 2170833 insulin-like growth factor 2 (somatomedin A) -IGF2AS NA NA NA NA NA NA -IGF2R 6 6q25.3 0 160390131 160527583 insulin-like growth factor 2 receptor -IL4R 16 16p12.1 0 27325251 27376099 interleukin 4 receptor -IMPACT 18 18q11.2 0 22006609 22033495 Impact homolog (mouse) -INPP5F 10 10q26.11 0 121485609 121588659 inositol polyphosphate-5-phosphatase F -INS 11 11p15.5 1 2181009 2182439 insulin -ITUP1 NA NA NA NA NA NA -KCNK9 8 8q24.3 1 140624804 140715299 potassium channel, subfamily K, member 9 -KCNQ1 11 11p15.5 0 2466221 2870340 potassium voltage-gated channel, KQT-like subfamily, member 1 -KCNQ1DN NA NA NA NA NA NA -KCNQ1OT1 NA NA NA NA NA NA -KLF14 7 7q32.3 1 130417396 130418888 Kruppel-like factor 14 -L211 NA NA NA NA NA NA -L3MBTL NA NA NA NA NA NA -LGALS14 19 19q13.2 0 40194946 40200088 lectin, galactoside-binding, soluble, 14 -LGALS8 1 1q43 0 236681514 236716281 lectin, galactoside-binding, soluble, 8 -LIN28B 6 6q16.3 0 105404923 105531206 lin-28 homolog B (C. elegans) -LRRTM1 2 2p12 1 80529003 80531487 leucine rich repeat transmembrane neuronal 1 -MAGEL2 15 15q11.2 1 23888696 23892993 MAGE-like 2 -MAGI2 7 7q21.11 1 77646374 79082890 membrane associated guanylate kinase, WW and PDZ domain containing 2 -MAS1 6 6q25.3 0 160327974 160329108 MAS1 oncogene -MEG3 NA NA NA NA NA NA -MEG8 NA NA NA NA NA NA -MEST 7 7q32.2 0 130126046 130146133 mesoderm specific transcript homolog (mouse) -MESTIT1 NA NA NA NA NA NA -MIR483 NA NA NA NA NA NA -MKRN3 15 15q11.2 0 23810454 23813167 makorin ring finger protein 3 -MS4A2 11 11q12.1 0 59856137 59865940 membrane-spanning 4-domains, subfamily A, member 2 -MYCN 2 2p24.3 0 16080683 16087129 v-myc myelocytomatosis viral related oncogene, neuroblastoma derived (avian) -NAA60 NA NA NA NA NA NA -NAP1L5 4 4q22.1 1 89617066 89619023 nucleosome assembly protein 1-like 5 -NDN 15 15q11.2 1 23930554 23932450 necdin homolog (mouse) -NDUFAF4 6 6q16.1 1 97337187 97345767 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, assembly factor 4 -NLRP2 19 19q13.42 0 55476652 55512510 NLR family, pyrin domain containing 2 -NNAT 20 20q11.23 0 36149607 36152092 neuronatin -NPAP1 NA NA NA NA NA NA -NTM 11 11q25 0 131240371 132206716 neurotrimin -OSBPL1A 18 18q11.2 1 21742009 21977833 oxysterol binding protein-like 1A -OSBPL5 11 11p15.4 1 3108346 3186582 oxysterol binding protein-like 5 -PAPPA2 1 1q25.2 0 176432307 176811972 pappalysin 2 -PDGFC 4 4q32.1 1 157682763 157892546 platelet derived growth factor C -PEG10 7 7q21.3 0 94285637 94299007 paternally expressed 10 -PEG3 19 19q13.43 1 57321445 57352094 paternally expressed 3 -PHACTR2 6 6q24.2 0 143929317 144152322 phosphatase and actin regulator 2 -PHF11 13 13q14.2 0 50069801 50103117 PHD finger protein 11 -PHLDA2 11 11p15.4 1 2949503 2950650 pleckstrin homology-like domain, family A, member 2 -PLAGL1 6 6q24.2 1 144261437 144385735 pleiomorphic adenoma gene-like 1 -PON1 7 7q21.3 1 94927669 94953884 paraoxonase 1 -PON2 7 7q21.3 1 95034174 95064384 paraoxonase 2 -PON3 7 7q21.3 1 94989184 95025687 paraoxonase 3 -PPP1R9A 7 7q21.3 0 94536949 94925727 protein phosphatase 1, regulatory subunit 9A -PRIM2 6 6p11.2 0 57182415 57512702 primase, DNA, polypeptide 2 (58kDa) -PWRN1 NA NA NA NA NA NA -PWRN2 NA NA NA NA NA NA -RASGRF1 15 15q25.1 1 79252289 79383215 Ras protein-specific guanine nucleotide-releasing factor 1 -RASSF1 3 3p21.31 1 50367217 50378367 Ras association (RalGDS/AF-6) domain family member 1 -RB1 13 13q14.2 0 48877883 49056026 retinoblastoma 1 -RHOBTB3 5 5q15 0 95066850 95132071 Rho-related BTB domain containing 3 -RTL1 14 14q32.2 1 101346992 101351184 retrotransposon-like 1 -SBK1 16 16p11.2 0 28303840 28335170 SH3-binding domain kinase 1 -SCA8 NA NA NA NA NA NA -SDHD 11 11q23.1 0 111957571 111966518 succinate dehydrogenase complex, subunit D, integral membrane protein -SFMBT2 10 10p14 1 7200586 7453448 Scm-like with four mbt domains 2 -SFRP2 4 4q31.3 1 154701742 154710228 secreted frizzled-related protein 2 -SGCE 7 7q21.3 1 94214536 94285521 sarcoglycan, epsilon -SLC22A18AS 11 11p15.4 1 2909327 2925175 solute carrier family 22 (organic cation transporter), member 18 antisense -SLC22A2 6 6q25.3 1 160637794 160679963 solute carrier family 22 (organic cation transporter), member 2 -SLC22A3 6 6q25.3 0 160769425 160876014 solute carrier family 22 (extraneuronal monoamine transporter), member 3 -SLC38A4 12 12q13.11 1 47158544 47219780 solute carrier family 38, member 4 -SMPD1 11 11p15.4 0 6411644 6416228 sphingomyelin phosphodiesterase 1, acid lysosomal -SNURF 15 15q11.2 0 25200070 25223729 SNRPN upstream reading frame -SPINK5 5 5q32 0 147443535 147516925 serine peptidase inhibitor, Kazal type 5 -SPTLC3 20 20p12.1 0 12989627 13147411 serine palmitoyltransferase, long chain base subunit 3 -STOX1 10 10q21.3 0 70587294 70655209 storkhead box 1 -TCEB3C 18 18q21.1 1 44554573 44556449 transcription elongation factor B polypeptide 3C (elongin A3) -TCOF1 5 5q32 0 149737202 149779871 Treacher Collins-Franceschetti syndrome 1 -TFPI2 7 7q21.3 1 93515745 93520065 tissue factor pathway inhibitor 2 -TGFB3 14 14q24.3 1 76424442 76448092 transforming growth factor, beta 3 -TH 11 11p15.5 1 2185159 2193035 tyrosine hydroxylase -TP73 1 1p36.32 0 3569129 3652765 tumor protein p73 -TRPM5 11 11p15.5 1 2425745 2444275 transient receptor potential cation channel, subfamily M, member 5 -TSPAN32 11 11p15.5 0 2323243 2339430 tetraspanin 32 -TSPEAR 21 21q22.3 1 45917775 46131495 thrombospondin-type laminin G domain and EAR repeats -TSSC4 11 11p15.5 0 2423523 2425106 tumor suppressing subtransferable candidate 4 -U2AF1L1 NA NA NA NA NA NA -UBE3A 15 15q11.2 1 25582396 25684175 ubiquitin protein ligase E3A -UPD NA NA NA NA NA NA -USP29 19 19q13.43 0 57631509 57643294 ubiquitin specific peptidase 29 -W89101 NA NA NA NA NA NA -WIF1 12 12q14.3 1 65444404 65515346 WNT inhibitory factor 1 -ZFAT 8 8q24.22 1 135490031 135725292 zinc finger and AT hook domain containing -ZNF215 11 11p15.4 0 6947654 6979278 zinc finger protein 215 -ZNF331 19 19q13.42 0 54024177 54083523 zinc finger protein 331 -ZNF597 16 16p13.3 1 3486110 3493490 zinc finger protein 597 -ABCC9 12 12p12.1 1 21950323 22089628 ATP-binding cassette, sub-family C (CFTR/MRP), member 9 -ABCG8 2 2p21 0 44066103 44105605 ATP-binding cassette, sub-family G (WHITE), member 8 -ACD 16 16q22.1 1 67691415 67694718 adrenocortical dysplasia homolog (mouse) -ADAMTS16 5 5p15.32 0 5140443 5320412 ADAM metallopeptidase with thrombospondin type 1 motif, 16 -ALDH1L1 3 3q21.3 1 125822408 125899485 aldehyde dehydrogenase 1 family, member L1 -APBA1 9 9q21.11 1 72042449 72287275 amyloid beta (A4) precursor protein-binding, family A, member 1 -ATP10A 15 15q12 1 25923859 26108349 ATPase, class V, type 10A -B4GALNT4 11 11p15.5 0 369795 382117 beta-1,4-N-acetyl-galactosaminyl transferase 4 -BMP8B 1 1p34.2 1 40223903 40254533 bone morphogenetic protein 8b -BRP44L 6 6q27 1 166778407 166796486 brain protein 44-like -BRUNOL4 NA NA NA NA NA NA -BTNL2 6 6p21.32 1 32362513 32374900 butyrophilin-like 2 (MHC class II associated) -C10orf91 10 10q26.3 0 134258714 134261825 chromosome 10 open reading frame 91 -C10orf93 10 10q26.3 1 134742689 134756089 NA -C16orf57 16 16q21 0 58035277 58055527 chromosome 16 open reading frame 57 -C20orf20 20 20q13.33 0 61427805 61431945 chromosome 20 open reading frame 20 -C20orf82 NA NA NA NA NA NA -C6orf117 NA NA NA NA NA NA -C9orf116 9 9q34.3 1 138387026 138391761 chromosome 9 open reading frame 116 -C9orf85 9 9q21.13 0 74526423 74588373 chromosome 9 open reading frame 85 -CCDC85A 2 2p16.1 0 56411258 56613309 coiled-coil domain containing 85A -CDH18 5 5p14.3 1 19473140 19988353 cadherin 18, type 2 -CDK4 12 12q14.1 1 58142003 58146164 cyclin-dependent kinase 4 -CHMP2A 19 19q13.43 1 59062933 59066486 charged multivesicular body protein 2A -CHST8 19 19q13.11 0 34112861 34264414 carbohydrate (N-acetylgalactosamine 4-0) sulfotransferase 8 -COL9A3 20 20q13.33 0 61448414 61472511 collagen, type IX, alpha 3 -CSF2 5 5q31.1 0 131409485 131411859 colony stimulating factor 2 (granulocyte-macrophage) -CYP1B1 2 2p22.2 1 38294746 38303323 cytochrome P450, family 1, subfamily B, polypeptide 1 -DGCR6 22 22q11.21 0 18893736 18899601 DiGeorge syndrome critical region gene 6 -DGCR6L 22 22q11.21 1 20301761 20307628 DiGeorge syndrome critical region gene 6-like -DVL1 1 1p36.33 1 1270658 1284492 dishevelled, dsh homolog 1 (Drosophila) -E2F7 12 12q21.2 1 77415026 77459360 E2F transcription factor 7 -EGFL7 9 9q34.3 0 139557377 139567130 EGF-like-domain, multiple 7 -EVX1 7 7p15.2 0 27282164 27286192 even-skipped homeobox 1 -FAM50B 6 6p25.2 0 3849632 3851551 family with sequence similarity 50, member B -FAM59A 18 18q12.1 1 29843484 30050447 family with sequence similarity 59, member A -FAM70B 13 13q34 0 114462216 114514899 family with sequence similarity 70, member B -FASTK 7 7q36.1 1 150773708 150777951 Fas-activated serine/threonine kinase -FBRSL1 12 12q24.33 0 133067157 133161774 fibrosin-like 1 -FERMT2 14 14q22.1 1 53323989 53417815 fermitin family member 2 -FGFRL1 4 4p16.3 0 1005610 1020686 fibroblast growth factor receptor-like 1 -FLJ20464 NA NA NA NA NA NA -FLJ40296 NA NA NA NA NA NA -FLJ46321 NA NA NA NA NA NA -FOXF1 16 16q24.1 0 86544133 86548070 forkhead box F1 -FOXG1 14 14q12 0 29236287 29238871 forkhead box G1 -FUCA1 1 1p36.11 1 24171567 24194859 fucosidase, alpha-L- 1, tissue -GABRA5 15 15q12 0 27111866 27194357 gamma-aminobutyric acid (GABA) A receptor, alpha 5 -GABRG3 15 15q12 0 27216429 27778373 gamma-aminobutyric acid (GABA) A receptor, gamma 3 -GATA3 10 10p14 0 8096667 8117164 GATA binding protein 3 -GATM 15 15q21.1 1 45653322 45670980 glycine amidinotransferase (L-arginine:glycine amidinotransferase) -GDAP1L1 20 20q13.12 0 42875908 42909013 ganglioside induced differentiation associated protein 1-like 1 -GFI1 1 1p22.1 1 92940318 92952433 growth factor independent 1 transcription repressor -GLI3 7 7p14.1 1 42000547 42276618 GLI family zinc finger 3 -GLIS3 9 9p24.2 1 3824128 4300035 GLIS family zinc finger 3 -GNAS 20 20q13.32 0 57414795 57486250 GNAS complex locus -GNASAS NA NA NA NA NA NA -GPT 8 8q24.3 0 145729465 145732555 glutamic-pyruvate transaminase (alanine aminotransferase) -HES1 3 3q29 0 193853931 193856401 hairy and enhancer of split 1, (Drosophila) -HIST3H2BB 1 1q42.13 0 228645808 228646259 histone cluster 3, H2bb -HOXA11 7 7p15.2 1 27220776 27224835 homeobox A11 -HOXA2 7 7p15.2 1 27139973 27142394 homeobox A2 -HOXA3 7 7p15.2 1 27145809 27166639 homeobox A3 -HOXA4 7 7p15.2 1 27168126 27170399 homeobox A4 -HOXA5 7 7p15.2 1 27180671 27183287 homeobox A5 -HOXB2 17 17q21.32 1 46620017 46622393 homeobox B2 -HOXB3 17 17q21.32 1 46626232 46651810 homeobox B3 -HOXC4 12 12q13.13 0 54410642 54449814 homeobox C4 -HOXC9 12 12q13.13 0 54393877 54397121 homeobox C9 -HSPA6 1 1q23.3 0 161494036 161496687 heat shock 70kDa protein 6 (HSP70B') -IFITM1 11 11p15.5 0 313991 315272 interferon induced transmembrane protein 1 -INPP5F V2 NA NA NA NA NA NA +IFITM1 11 11p15.5 + 313506 315272 interferon induced transmembrane protein 1 +IGF2 11 11p15.5 - 2150342 2170833 insulin-like growth factor 2 (somatomedin A) +IGF2-AS 11 11p15.5 + 2161731 2169894 NA +IGF2R 6 6q25.3 + 160390131 160534539 insulin-like growth factor 2 receptor +IL2RA 10 10p15.1 - 6052652 6104288 interleukin 2 receptor, alpha +IL4R 16 16p12.1 + 27324989 27376099 interleukin 4 receptor +IMPACT 18 18q11.2 + 22006580 22033499 Impact homolog (mouse) +INPP5F 10 10q26.11 + 121485609 121588652 inositol polyphosphate-5-phosphatase F +INS 11 11p15.5 - 2181009 2182571 insulin IRAIN NA NA NA NA NA NA -ISM1 20 20p12.1 0 13202418 13281297 isthmin 1 homolog (zebrafish) -KBTBD3 11 11q22.3 1 105921825 105948465 kelch repeat and BTB (POZ) domain containing 3 -KIAA1530 4 4p16.3 0 1341104 1381837 KIAA1530 -KIAA1545 NA NA NA NA NA NA -LDB1 10 10q24.32 1 103867317 103880210 LIM domain binding 1 -LILRB4 19 19q13.42 0 55174124 55179848 leukocyte immunoglobulin-like receptor, subfamily B (with TM and ITIM domains), member 4 -LMX1B 9 9q33.3 0 129376722 129463311 LIM homeobox transcription factor 1, beta +ISM1 20 20p12.1 + 13202418 13281298 isthmin 1 homolog (zebrafish) +ISM1 20 20p12.1 + 13202418 13281298 isthmin 1 homolog (zebrafish) +KBTBD3 11 11q22.3 - 105921825 105948492 kelch repeat and BTB (POZ) domain containing 3 +KCNK9 8 8q24.3 - 140613081 140715299 potassium channel, subfamily K, member 9 +KCNK9 8 8q24.3 - 140613081 140715299 potassium channel, subfamily K, member 9 +KCNQ1 11 11p15.5 + 2465914 2870339 potassium voltage-gated channel, KQT-like subfamily, member 1 +KCNQ1DN 11 11p15.4 + 2891263 2893335 KCNQ1 downstream neighbor (non-protein coding) +KCNQ1OT1 11 11p15.5 - 2629558 2721224 KCNQ1 opposite strand/antisense transcript 1 (non-protein coding) +KLF14 7 7q32.3 - 130417401 130418888 Kruppel-like factor 14 +KLK3 19 19q13.33 + 51358171 51364020 kallikrein-related peptidase 3 +L211 NA NA NA NA NA NA +L3MBTL1 20 20q13.12 + 42136320 42179590 l(3)mbt-like 1 (Drosophila) +LDB1 10 10q24.32 - 103867317 103880210 LIM domain binding 1 +LGALS14 19 19q13.2 + 40194946 40200084 lectin, galactoside-binding, soluble, 14 +LGALS8 1 1q43 + 236681300 236716281 lectin, galactoside-binding, soluble, 8 +LILRB4 19 19q13.42 + 55155340 55181810 leukocyte immunoglobulin-like receptor, subfamily B (with TM and ITIM domains), member 4 +LIN28B 6 6q16.3 + 105404923 105531207 lin-28 homolog B (C. elegans) +LINC01521 NA NA NA NA NA NA +LMX1B 9 9q33.3 + 129376722 129463311 LIM homeobox transcription factor 1, beta LOC100131170 NA NA NA NA NA NA -LY6D 8 8q24.3 1 143866298 143868008 lymphocyte antigen 6 complex, locus D -MCTS2 NA NA NA NA NA NA -MIMT1 NA NA NA NA NA NA -MIR184 NA NA NA NA NA NA -MIR296 NA NA NA NA NA NA -MIR298 NA NA NA NA NA NA -MIR371A NA NA NA NA NA NA -MRAP2 6 6q14.2 0 84743420 84800606 melanocortin 2 receptor accessory protein 2 -MYEOV2 2 2q37.3 1 241065980 241075764 myeloma overexpressed 2 -MZF1 19 19q13.43 1 59073284 59084942 myeloid zinc finger 1 -NAP1L4 11 11p15.4 1 2965660 3013607 nucleosome assembly protein 1-like 4 +LRRTM1 2 2p12 - 80515483 80531874 leucine rich repeat transmembrane neuronal 1 +LY6D 8 8q24.3 - 143866296 143868008 lymphocyte antigen 6 complex, locus D +MAGEL2 15 15q11.2 - 23888691 23891175 MAGE-like 2 +MAGI2 7 7q21.11 - 77646393 79082890 membrane associated guanylate kinase, WW and PDZ domain containing 2 +MAS1 6 6q25.3 + 160327974 160329108 MAS1 oncogene +MCTS2P NA NA NA NA NA NA +MCTS2P NA NA NA NA NA NA +MEG3 14 14q32.2 + 101245747 101327368 maternally expressed 3 (non-protein coding) +MEG8 14 14q32.2 + 101361107 101402336 maternally expressed 8 (non-protein coding) +MEST 7 7q32.2 + 130126012 130146133 mesoderm specific transcript homolog (mouse) +MESTIT1 NA NA NA NA NA NA +MIMT1 19 19q13.43 + 57352270 57359924 MER1 repeat containing imprinted transcript 1 (non-protein coding) +MIMT1 19 19q13.43 + 57352270 57359924 MER1 repeat containing imprinted transcript 1 (non-protein coding) +MIR184 15 15q25.1 + 79502130 79502213 microRNA 184 +MIR296 20 20q13.32 - 57392187 57392780 microRNA 296 +MIR298 20 20q13.32 - 57393281 57393368 microRNA 298 +MIR371A 19 19q13.42 + 54290929 54290995 microRNA 371a +MIR483 11 11p15.5 - 2155364 2155439 microRNA 483 +MKRN3 15 15q11.2 + 23810454 23873064 makorin ring finger protein 3 +MKRN3-AS1 NA NA NA NA NA NA +MPC1 6 6q27 - 166778407 166796486 NA +MRAP2 6 6q14.2 + 84743475 84800600 melanocortin 2 receptor accessory protein 2 +MRAP2 6 6q14.2 + 84743475 84800600 melanocortin 2 receptor accessory protein 2 +MRGBP 20 20q13.33 + 61427805 61431945 NA +MS4A2 11 11q12.1 + 59855734 59863444 membrane-spanning 4-domains, subfamily A, member 2 +MYCN 2 2p24.3 + 16080686 16087129 v-myc myelocytomatosis viral related oncogene, neuroblastoma derived (avian) +MYEOV2 2 2q37.3 - 241065980 241076224 myeloma overexpressed 2 +MZF1 19 19q13.43 - 59073298 59084942 myeloid zinc finger 1 +NAA60 16 16p13.3 + 3415099 3536960 N(alpha)-acetyltransferase 60, NatF catalytic subunit +NAP1L4 11 11p15.4 - 2965667 3013607 nucleosome assembly protein 1-like 4 +NAP1L5 4 4q22.1 - 89617066 89619386 nucleosome assembly protein 1-like 5 +NDN 15 15q11.2 - 23930565 23932450 necdin homolog (mouse) NDUFA4P1 NA NA NA NA NA NA -NKAIN3 8 8q12.3 0 63161501 63903628 Na+/K+ transporting ATPase interacting 3 -NKX6-2 10 10q26.3 1 134598320 134599537 NK6 homeobox 2 -OBSCN 1 1q42.13 0 228395861 228566575 obscurin, cytoskeletal calmodulin and titin-interacting RhoGEF -OR11L1 1 1q44 1 248004230 248005198 olfactory receptor, family 11, subfamily L, member 1 -OTX1 2 2p15 0 63277192 63284966 orthodenticle homeobox 1 -PAOX 10 10q26.3 0 135192741 135205198 polyamine oxidase (exo-N4-amino) -PEG13 NA NA NA NA NA NA -PEX10 1 1p36.32 1 2336241 2344010 peroxisomal biogenesis factor 10 -PHPT1 9 9q34.3 0 139743256 139745490 phosphohistidine phosphatase 1 -PKP3 11 11p15.5 0 394217 404908 plakophilin 3 -PPAP2C 19 19p13.3 1 281043 291435 phosphatidic acid phosphatase type 2C -PRDM16 1 1p36.32 0 2985742 3355185 PR domain containing 16 -PSIMCT-1 NA NA NA NA NA NA -PTPN14 1 1q41 1 214522039 214725024 protein tyrosine phosphatase, non-receptor type 14 -PURG 8 8p12 1 30853321 30891231 purine-rich element binding protein G -PWCR1 NA NA NA NA NA NA -PYY2 NA NA NA NA NA NA -RAB1B 11 11q13.2 0 66036056 66044963 RAB1B, member RAS oncogene family -RBP5 12 12p13.31 1 7276280 7281466 retinol binding protein 5, cellular -RNU5D-1 NA NA NA NA NA NA -RPL22 1 1p36.31 1 6245080 6259679 ribosomal protein L22 -SALL1 16 16q12.1 1 51169886 51185183 sal-like 1 (Drosophila) -SANG NA NA NA NA NA NA -SGK2 20 20q13.12 0 42187635 42214273 serum/glucocorticoid regulated kinase 2 -SIM2 21 21q22.13 0 38071991 38122510 single-minded homolog 2 (Drosophila) -SLC22A18 11 11p15.4 0 2920951 2946476 solute carrier family 22, member 18 -SLC22A2* NA NA NA NA NA NA -SLC22A3* NA NA NA NA NA NA -SLC26A10 12 12q13.3 0 58013693 58019934 solute carrier family 26, member 10 -SLC4A2 7 7q36.1 0 150755299 150773614 solute carrier family 4, anion exchanger, member 2 (erythrocyte membrane protein band 3-like 1) +NDUFAF4 6 6q16.1 - 97337189 97345757 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, assembly factor 4 +NKAIN3 8 8q12.3 + 63161150 63912211 Na+/K+ transporting ATPase interacting 3 +NKX6-2 10 10q26.3 - 134598297 134599556 NK6 homeobox 2 +NLRP2 19 19q13.42 + 55464498 55512510 NLR family, pyrin domain containing 2 +NNAT 20 20q11.23 + 36149617 36152092 neuronatin +NPAP1 15 15q11.2 + 24920541 24928593 NA +NTM 11 11q25 + 131240373 132206716 neurotrimin +OBSCN 1 1q42.13 + 228395831 228566577 obscurin, cytoskeletal calmodulin and titin-interacting RhoGEF +OR11L1 1 1q44 - 248004199 248005254 olfactory receptor, family 11, subfamily L, member 1 +OSBPL1A 18 18q11.2 - 21742008 21977844 oxysterol binding protein-like 1A +OSBPL5 11 11p15.4 - 3108346 3187969 oxysterol binding protein-like 5 +OTX1 2 2p15 + 63277192 63284971 orthodenticle homeobox 1 +PAOX 10 10q26.3 + 135192695 135205198 polyamine oxidase (exo-N4-amino) +PAPPA2 1 1q25.2 + 176432307 176814735 pappalysin 2 +PDGFC 4 4q32.1 - 157681606 157892546 platelet derived growth factor C +PEG10 7 7q21.3 + 94285637 94299007 paternally expressed 10 +PEG3 19 19q13.43 - 57321445 57352096 paternally expressed 3 +PEX10 1 1p36.32 - 2336236 2345236 peroxisomal biogenesis factor 10 +PHACTR2 6 6q24.2 + 143857982 144152322 phosphatase and actin regulator 2 +PHF11 13 13q14.2 + 50069746 50103123 PHD finger protein 11 +PHLDA2 11 11p15.4 - 2949503 2950685 pleckstrin homology-like domain, family A, member 2 +PHPT1 9 9q34.3 + 139743176 139745488 phosphohistidine phosphatase 1 +PKP3 11 11p15.5 + 392614 404908 plakophilin 3 +PLAGL1 6 6q24.2 - 144261437 144385735 pleiomorphic adenoma gene-like 1 +PON1 7 7q21.3 - 94926988 95025673 paraoxonase 1 +PON2 7 7q21.3 - 95034175 95064510 paraoxonase 2 +PON3 7 7q21.3 - 94989256 95025680 paraoxonase 3 +PPAP2C 19 19p13.3 - 281040 291393 phosphatidic acid phosphatase type 2C +PPP1R9A 7 7q21.3 + 94536514 94925727 protein phosphatase 1, regulatory subunit 9A +PRDM16 1 1p36.32 + 2985732 3355185 PR domain containing 16 +PRIM2 6 6p11.2 + 57179603 57513375 primase, DNA, polypeptide 2 (58kDa) +PRR20A 13 13q21.1 + 57715052 57718073 proline rich 20A +PTPN14 1 1q41 - 214522039 214725792 protein tyrosine phosphatase, non-receptor type 14 +PURG 8 8p12 - 30853321 30891231 purine-rich element binding protein G +PWRN1 15 15q11.2 + 24738284 24897277 Prader-Willi region non-protein coding RNA 1 +PWRN2 15 15q11.2 - 24407901 24415095 Prader-Willi region non-protein coding RNA 2 +PYY2 17 17q11.2 + 26553589 26555091 peptide YY, 2 (seminalplasmin) +RAB1B 11 11q13.2 + 66036004 66044963 RAB1B, member RAS oncogene family +RASGRF1 15 15q25.1 - 79252289 79383115 Ras protein-specific guanine nucleotide-releasing factor 1 +RASSF1 3 3p21.31 - 50367219 50378411 Ras association (RalGDS/AF-6) domain family member 1 +RB1 13 13q14.2 + 48877887 49056122 retinoblastoma 1 +RBP5 12 12p13.31 - 7276280 7281538 retinol binding protein 5, cellular +RHOBTB3 5 5q15 + 95049226 95160087 Rho-related BTB domain containing 3 +RNU5D-1 1 1p34.1 - 45196727 45196842 RNA, U5D small nuclear 1 +RPL22 1 1p36.31 - 6241329 6269449 ribosomal protein L22 +RTL1 14 14q32.2 - 101346992 101351184 retrotransposon-like 1 +SALL1 16 16q12.1 - 51169886 51185278 sal-like 1 (Drosophila) +SBK1 16 16p11.2 + 28303840 28335170 SH3-binding domain kinase 1 +SDHD 11 11q23.1 + 111957497 111990353 succinate dehydrogenase complex, subunit D, integral membrane protein +SFMBT2 10 10p14 - 7200586 7453450 Scm-like with four mbt domains 2 +SFRP2 4 4q31.3 - 154701744 154710272 secreted frizzled-related protein 2 +SGCE 7 7q21.3 - 94214542 94285521 sarcoglycan, epsilon +SGK2 20 20q13.12 + 42187608 42216877 serum/glucocorticoid regulated kinase 2 +SIM2 21 21q22.13 + 38071433 38122218 single-minded homolog 2 (Drosophila) +SLC22A18 11 11p15.4 + 2920951 2946476 solute carrier family 22, member 18 +SLC22A18AS 11 11p15.4 - 2909010 2924970 solute carrier family 22 (organic cation transporter), member 18 antisense +SLC22A2 6 6q25.3 - 160592093 160698670 solute carrier family 22 (organic cation transporter), member 2 +SLC22A3 6 6q25.3 + 160769300 160876014 solute carrier family 22 (extraneuronal monoamine transporter), member 3 +SLC26A10 12 12q13.3 + 58013310 58019934 solute carrier family 26, member 10 +SLC38A4 12 12q13.11 - 47158546 47226191 solute carrier family 38, member 4 +SLC4A2 7 7q36.1 + 150754297 150773614 solute carrier family 4, anion exchanger, member 2 (erythrocyte membrane protein band 3-like 1) +SMPD1 11 11p15.4 + 6411655 6416228 sphingomyelin phosphodiesterase 1, acid lysosomal SNORD107 NA NA NA NA NA NA -SNORD108 NA NA NA NA NA NA -SNORD109A NA NA NA NA NA NA -SNORD109B NA NA NA NA NA NA -SNORD115-48 NA NA NA NA NA NA -SNORD115@ NA NA NA NA NA NA -SNORD116@ NA NA NA NA NA NA -SNORD64 NA NA NA NA NA NA -SNRPN 15 15q11.2 0 25068794 25223729 small nuclear ribonucleoprotein polypeptide N -SOX8 16 16p13.3 0 1031808 1036979 SRY (sex determining region Y)-box 8 -SPON2 4 4p16.3 1 1160720 1202750 spondin 2, extracellular matrix protein -TIGD1 2 2q37.1 1 233412779 233415226 tigger transposable element derived 1 -TMEM52 1 1p36.33 1 1849029 1850740 transmembrane protein 52 -TMEM60 7 7q11.23 1 77423045 77427747 transmembrane protein 60 -TMEM88 17 17p13.1 0 7758384 7759417 transmembrane protein 88 -TSHZ3 19 19q12 1 31765851 31840190 teashirt zinc finger homeobox 3 -TSIX NA NA NA NA NA NA -VAX2 2 2p13.3 0 71127720 71160576 ventral anterior homeobox 2 -VENTX 10 10q26.3 0 135051408 135055433 VENT homeobox -WDR8 NA NA NA NA NA NA -WT1-Alt trans NA NA NA NA NA NA -XIST NA NA NA NA NA NA -ZC3H12C 11 11q22.3 0 109964087 110042566 zinc finger CCCH-type containing 12C -ZDBF2 2 2q33.3 0 207139523 207179148 zinc finger, DBF-type containing 2 -ZFAT-AS1 NA NA NA NA NA NA -ZFP36L2 2 2p21 1 43449541 43453745 zinc finger protein 36, C3H type-like 2 -ZIC1 3 3q24 0 147127181 147134506 Zic family member 1 -ZIM2 19 19q13.43 1 57285915 57352097 zinc finger, imprinted 2 -ZIM3 19 19q13.43 1 57645464 57656570 zinc finger, imprinted 3 -ZNF127AS NA NA NA NA NA NA -ZNF225 19 19q13.31 0 44617548 44637255 zinc finger protein 225 -ZNF229 19 19q13.31 1 44930426 44952665 zinc finger protein 229 -ZNF264 19 19q13.43 0 57702868 57734214 zinc finger protein 264 +SNORD108 15 15q11.2 + 25232072 25232142 small nucleolar RNA, C/D box 108 +SNORD109A 15 15q11.2 + 25287065 25287575 small nucleolar RNA, C/D box 109A +SNORD109B 15 15q11.2 + 25523490 25523556 small nucleolar RNA, C/D box 109B +SNORD115 10 10p11.23 + 29864235 29864310 NA +SNORD115-48 15 15q11.2 + 25514930 25515005 small nucleolar RNA, C/D box 115-48 +SNORD116 1 1q41 - 215803368 215803459 NA +SNORD116 1 1q41 - 215803368 215803459 NA +SNORD64 1 1q23.2 - 159821696 159821762 small nucleolar RNA, C/D box 64 +SNRPN 15 15q11.2 + 25068794 25223870 small nuclear ribonucleoprotein polypeptide N +SNURF 15 15q11.2 + 25200133 25223729 SNRPN upstream reading frame +SOX8 16 16p13.3 + 1031808 1036979 SRY (sex determining region Y)-box 8 +SPATA31D1 9 9q21.32 + 84603687 84610171 NA +SPINK5 5 5q32 + 147405246 147516852 serine peptidase inhibitor, Kazal type 5 +SPON2 4 4p16.3 - 1160720 1202750 spondin 2, extracellular matrix protein +SPTLC3 20 20p12.1 + 12989627 13147411 serine palmitoyltransferase, long chain base subunit 3 +STOX1 10 10q21.3 + 70587298 70655188 storkhead box 1 +TCEB3C 18 18q21.1 - 44554573 44556449 transcription elongation factor B polypeptide 3C (elongin A3) +TCOF1 5 5q32 + 149737202 149779871 Treacher Collins-Franceschetti syndrome 1 +TFPI2 7 7q21.3 - 93514709 93520303 tissue factor pathway inhibitor 2 +TGFB3 14 14q24.3 - 76424442 76449334 transforming growth factor, beta 3 +TH 11 11p15.5 - 2185159 2193107 tyrosine hydroxylase +TIGD1 2 2q37.1 - 233412779 233415226 tigger transposable element derived 1 +TMEM255B 13 13q34 + 114462216 114514926 NA +TMEM52 1 1p36.33 - 1849029 1850712 transmembrane protein 52 +TMEM60 7 7q11.23 - 77423045 77427897 transmembrane protein 60 +TMEM88 17 17p13.1 + 7758383 7759417 transmembrane protein 88 +TP73 1 1p36.32 + 3569084 3652765 tumor protein p73 +TRPM5 11 11p15.5 - 2425745 2444275 transient receptor potential cation channel, subfamily M, member 5 +TSHZ3 19 19q12 - 31765851 31840453 teashirt zinc finger homeobox 3 +TSIX X Xq13.2 + 73012040 73049066 TSIX transcript, XIST antisense RNA (non-protein coding) +TSPAN32 11 11p15.5 + 2323227 2339430 tetraspanin 32 +TSPEAR 21 21q22.3 - 45917775 46131495 thrombospondin-type laminin G domain and EAR repeats +TSSC4 11 11p15.5 + 2421718 2425106 tumor suppressing subtransferable candidate 4 +UBE3A 15 15q11.2 - 25582381 25684128 ubiquitin protein ligase E3A +UROD 1 1p34.1 + 45477819 45481247 uroporphyrinogen decarboxylase +USB1 16 16q21 + 58033450 58055522 NA +USP29 19 19q13.43 + 57630506 57643294 ubiquitin specific peptidase 29 +UVSSA 4 4p16.3 + 1341054 1381837 NA +VAX2 2 2p13.3 + 71127720 71160576 ventral anterior homeobox 2 +VENTX 10 10q26.3 + 135050908 135055433 VENT homeobox +W89101 NA NA NA NA NA NA +WIF1 12 12q14.3 - 65444406 65515346 WNT inhibitory factor 1 +WRAP73 1 1p36.32 - 3547331 3569325 WD repeat containing, antisense to TP73 +WT1 11 11p13 - 32409321 32457176 Wilms tumor 1 +XIST X Xq13.2 - 73040486 73072588 X (inactive)-specific transcript (non-protein coding) +ZC3H12C 11 11q22.3 + 109964087 110042566 zinc finger CCCH-type containing 12C +ZDBF2 2 2q33.3 + 207139387 207179148 zinc finger, DBF-type containing 2 +ZFAT 8 8q24.22 - 135490031 135725292 zinc finger and AT hook domain containing +ZFAT-AS1 8 8q24.22 + 135610314 135612932 ZFAT antisense RNA 1 (non-protein coding) +ZFP36L2 2 2p21 - 43449541 43453748 zinc finger protein 36, C3H type-like 2 +ZIC1 3 3q24 + 147111209 147228080 Zic family member 1 +ZIM2 19 19q13.43 - 57285920 57352097 zinc finger, imprinted 2 +ZIM3 19 19q13.43 - 57645464 57656570 zinc finger, imprinted 3 +ZNF215 11 11p15.4 + 6947635 7005863 zinc finger protein 215 +ZNF225 19 19q13.31 + 44616334 44637027 zinc finger protein 225 +ZNF229 19 19q13.31 - 44921685 44952766 zinc finger protein 229 +ZNF264 19 19q13.43 + 57702868 57724724 zinc finger protein 264 +ZNF331 19 19q13.42 + 54024235 54083523 zinc finger protein 331 +ZNF597 16 16p13.3 - 3486104 3493542 zinc finger protein 597 +ZRSR1 5 5q22.2 + 112227313 112228791 zinc finger (CCCH type), RNA-binding motif and serine/arginine rich 1 -- 2.39.2