STANDARD_NAME TGACCTTG_SF1_Q6 SYSTEMATIC_NAME M1630 COLLECTION C3:TFT:TFT_LEGACY MSIGDB_URL https://www.gsea-msigdb.org/gsea/msigdb/human/geneset/TGACCTTG_SF1_Q6 NAMESPACE HUMAN_GENE_SYMBOL DESCRIPTION_BRIEF Genes having at least one occurrence of the highly conserved motif M38 TGACCTTG in the regions spanning 4 kb centered on their transcription starting sites [-2kb, +2kb]. This matches the SF1 [GeneSymbol=SF1] transcription factor binding site V$SF1_Q6 (v7.4 TRANSFAC). DESCRIPTION_FULL Comprehensive identification of all functional elements encoded in the human genome is a fundamental need in biomedical research. Here, we present a comparative analysis of the human, mouse, rat and dog genomes to create a systematic catalogue of common regulatory motifs in promoters and 3' untranslated regions (3' UTRs). The promoter analysis yields 174 candidate motifs, including most previously known transcription-factor binding sites and 105 new motifs. The 3'-UTR analysis yields 106 motifs likely to be involved in post-transcriptional regulation. Nearly one-half are associated with microRNAs (miRNAs), leading to the discovery of many new miRNA genes and their likely target genes. Our results suggest that previous estimates of the number of human miRNA genes were low, and that miRNAs regulate at least 20% of human genes. The overall results provide a systematic view of gene regulation in the human, which will be refined as additional mammalian genomes become available. PMID 15735639 GEOID AUTHORS Xie X,Lu J,Kulbokas EJ,Golub TR,Mootha V,Lindblad-Toh K,Lander ES,Kellis M CONTRIBUTOR Xiaohui Xie CONTRIBUTOR_ORG Broad Institute EXACT_SOURCE FILTERED_BY_SIMILARITY EXTERNAL_NAMES_FOR_SIMILAR_TERMS EXTERNAL_DETAILS_URL SOURCE_MEMBERS ABHD3,ABTB2,ACO2,AD-003,ADCY1,AFG3L2,AK2,ALDOA,AMPD3,AMY2A,ANKRD28,APP,ARF3,ASTN2,ATP1B1,ATP5B,ATP5C1,ATP5G1,ATP5G3,ATP5J,ATP6AP2,ATP6V0C,ATP6V1B1,AUH,BLCAP,C10orf26,C14orf43,C16orf44,C20orf98,C22orf16,C6orf152,C6orf155,C6orf203,C6orf47,C6orf65,C9orf24,C9orf39,CA2,CACNB2,CAMK2G,CASQ2,CATSPER2,CCNE1,CDH16,CDKL5,CEL,CGI-38,CHAT,CHD2,CHGA,CKB,CKMT1,CLC,CNTF,CNTN2,COMTD1,COX4I1,COX5B,CRSP7,CS,CTSD,CX3CL1,CYC1,DEXI,DIRAS1,DNAJC11,DNER,DSCR1L1,EEF1A2,ELAVL3,EPN3,EPS8L2,ESRRA,FANCD2,FBI4,FBXO18,FGF9,FLJ13089,FLJ14084,FLJ22471,FLJ23436,FLJ23865,FLJ35961,FLJ37451,FLJ37538,FLJ38736,FLJ39075,FLJ40224,FLJ45256,FNDC5,FSTL3,FZD9,GABARAPL1,GABPA,GABRA3,GAF1,GBAS,GK,GPR52,GPR55,GRP58,HCCA2,HCN1,HCN4,HIG1,HMGB3,HOXC10,HOXC13,HSPA9B,HSPC051,HSPC129,HSPD1,HSPE1,HTF9C,IBRDC3,IDH3A,IMMT,INSR,IRA1,KCNG4,KCNK1,KCNMB2,KIAA0460,KIAA0586,KIAA0763,KIAA0999,KIAA1173,KIAA1221,KIBRA,KIF5A,KIN,KIRREL3,KLK15,LAMB2,LOC148872,LOC283807,LOC338799,LOC51760,LOC55831,LRFN5,MADD,MAEA,MAL,MAP1B,MASP1,MEF2C,MEF2D,MGC17839,MGC20262,MGC26690,MGC33214,MGC4172,MGST3,MMRP19,MNT,MRPL47,MSI2,MTCH2,MTX2,MYL3,NCDN,NDFIP1,NDUFB5,NNAT,NOC4,NPTX2,NRXN2,NTF3,NTNG2,NXPH4,OA48-18,OGDHL,OR10A5,PANK1,PCDH7,PCTK1,PDHX,PHACTR3,PHF15,PHF5A,PKD1-LIKE,PNOC,POLR3D,PPP1R16B,PPP3CC,PRPSAP1,RAB3A,RANBP1,RANBP10,RAPGEF5,RBMS1,RBMX,RGS7,RHCG,RHOT1,RILP,RIN2,RIPX,RNF139,RNF4,RPH3A,RREB1,RS1,SCN5A,SDHD,SDK1,SEMA3F,SEMA7A,SH3GL2,SHFM3,SIAT4A,SIAT8E,SIAT9,SIK2,SLC2A4,SLC30A3,SLC37A2,SLC38A3,SLC6A8,SLC9A7,SLITRK1,SNIP,SNPH,SNTG1,SP192,STAC2,STK32A,SV2A,SYNGR1,TAB3,TBC1D15,TBX6,TCF2,TFRC,THSD6,TIMM8B,TIMM9,TMEM28,TNNI1,TOMM40,TRAP1,TUBB4,UBE1,UBL3,UCHL1,UQCRC1,VAMP2,VASP,VDAC2,VSNL1,WDFY3,WWP1,XYLT1,YWHAH,ZDHHC21,ZNF289,ZNF297B,ZRANB1 GENE_SYMBOLS ABHD3,ABTB2,ACO2,NTMT1,ADCY1,AFG3L2,AK2,ALDOA,AMPD3,AMY2A,ANKRD28,APP,ARF3,ASTN2,ATP1B1,ATP5F1B,ATP5F1C,ATP5MC1,ATP5MC3,ATP5PF,ATP6AP2,ATP6V0C,ATP6V1B1,AUH,BLCAP,WBP1L,MIDEAS,KLHL36,NRSN2,CHCHD10,LCA5,LINC00472,MTRES1,C6orf47,BEND6,C9orf24,CNTLN,CA2,CACNB2,CAMK2G,CASQ2,CATSPER2,CCNE1,CDH16,CDKL5,CEL,TPPP3,CHAT,CHD2,CHGA,CKB,CKMT1B,CLC,CNTF,CNTN2,COMTD1,COX4I1,COX5B,MED26,CS,CTSD,CX3CL1,CYC1,DEXI,DIRAS1,DNAJC11,DNER,RCAN2,EEF1A2,ELAVL3,EPN3,EPS8L2,ESRRA,FANCD2,WDFY3-AS2,FBH1,FGF9,NAA25,TMEM35A,CCDC92,ZNF768,,MYOM3,GDPD1,NYAP1,WDR72,ENSG00000291228,KIRREL3-AS3,LINC01567,FNDC5,FSTL3,FZD9,GABARAPL1,GABPA,GABRA3,RAB11FIP5,NIPSNAP2,GK,GPR52,GPR55,PDIA3,YY1AP1,HCN1,HCN4,HIGD1A,HMGB3,HOXC10,HOXC13,HSPA9,UQCR10,CTDSPL2,HSPD1,HSPE1,TRMT2A,RNF19B,IDH3A,IMMT,INSR,TBL1XR1,KCNG4,KCNK1,KCNMB2,RPRD2,KIAA0586,IQSEC1,SIK3,HHATL,ZNF644,WWC1,KIF5A,KIN,KIRREL3,KLK15,LAMB2,,FBXL22,LINC01089,SYT17,EMC3,LRFN5,MADD,MAEA,MAL,MAP1B,MASP1,MEF2C,MEF2D,TLCD5,DIPK1B,FAM81A,TMEM161B,DHRS11,MGST3,,MNT,MRPL47,MSI2,MTCH2,MTX2,MYL3,NCDN,NDFIP1,NDUFB5,NNAT,EMC8,NPTX2,NRXN2,NTF3,NTNG2,NXPH4,LUC7L3,OGDHL,OR10A5,PANK1,PCDH7,CDK16,PDHX,PHACTR3,JADE2,PHF5A,,PNOC,POLR3D,PPP1R16B,PPP3CC,PRPSAP1,RAB3A,RANBP1,RANBP10,RAPGEF5,RBMS1,RBMX,RGS7,RHCG,RHOT1,RILP,RIN2,,RNF139,RNF4,RPH3A,RREB1,RS1,SCN5A,SDHD,SDK1,SEMA3F,SEMA7A,SH3GL2,FBXW4,ST3GAL1,ST8SIA5,ST3GAL5,SIK2,SLC2A4,SLC30A3,SLC37A2,SLC38A3,SLC6A8,SLC9A7,SLITRK1,SRCIN1,SNPH,SNTG1,GPBP1L1,STAC2,STK32A,SV2A,SYNGR1,TAB3,TBC1D15,TBX6,HNF1B,TFRC,ADAMTSL5,TIMM8B,TIMM9,NALF2,TNNI1,TOMM40,TRAP1,TUBB4A,UBA1,UBL3,UCHL1,UQCRC1,VAMP2,VASP,VDAC2,VSNL1,WDFY3,WWP1,XYLT1,YWHAH,ZDHHC21,ARFGAP2,ZBTB43,ZRANB1 FOUNDER_NAMES