Tcf15 (transcription factor 15) - Rat Genome Database

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Gene: Tcf15 (transcription factor 15) Mus musculus
Analyze
Symbol: Tcf15
Name: transcription factor 15
RGD ID: 1318247
MGI Page MGI
Description: Enables DNA-binding transcription factor activity, RNA polymerase II-specific; E-box binding activity; and bHLH transcription factor binding activity. Contributes to DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in positive regulation of transcription by RNA polymerase II; regulation of stem cell differentiation; and stem cell population maintenance. Acts upstream of or within several processes, including epithelial cell differentiation; paraxial mesoderm development; and post-anal tail morphogenesis. Located in nucleus. Part of RNA polymerase II transcription regulator complex. Is expressed in several structures, including early embryo; foregut-midgut junction; genitourinary system; paraxial mesenchyme; and sensory organ. Orthologous to human TCF15 (transcription factor 15).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: bHLH-EC; bHLH-EC2; Mes; Meso1; p; paraxis; TCF-15
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392151,984,973 - 151,991,017 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2151,985,481 - 151,991,017 (+)EnsemblGRCm39 Ensembl
GRCm382152,143,056 - 152,149,097 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2152,143,561 - 152,149,097 (+)EnsemblGRCm38mm10GRCm38
MGSCv372151,969,345 - 151,974,833 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362151,835,013 - 151,840,538 (+)NCBIMGSCv36mm8
Celera2157,959,706 - 157,965,194 (+)NCBICelera
Cytogenetic Map2G3NCBI
cM Map274.83NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Phenotype Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. MGDs mouse GO annotations MGD data from the GO Consortium
2. MGD IEA MGD IEA
3. Mouse MP Annotation Import Pipeline RGD automated import pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:7588439   PMID:7597044   PMID:7729571   PMID:8041747   PMID:8825648   PMID:8955271   PMID:9050988   PMID:9109488   PMID:9153393   PMID:9242490   PMID:9466889   PMID:9490412  
PMID:9520323   PMID:10208749   PMID:10556048   PMID:10818213   PMID:10837126   PMID:10906448   PMID:11017084   PMID:11124811   PMID:11133162   PMID:11134352   PMID:11262239   PMID:11311163  
PMID:11562355   PMID:11641270   PMID:11900971   PMID:12477932   PMID:12591245   PMID:12925591   PMID:14610273   PMID:14745966   PMID:15057272   PMID:15136723   PMID:15155583   PMID:15162501  
PMID:15226298   PMID:15226823   PMID:15469977   PMID:15489334   PMID:15604102   PMID:15618518   PMID:15937931   PMID:16387292   PMID:16408284   PMID:16508312   PMID:16564520   PMID:17325035  
PMID:17477400   PMID:17490632   PMID:17572911   PMID:17937396   PMID:18045842   PMID:18157121   PMID:18361414   PMID:18676376   PMID:18799693   PMID:19103755   PMID:19853565   PMID:19906845  
PMID:21111815   PMID:21731673   PMID:21873635   PMID:22008794   PMID:22015720   PMID:22833126   PMID:23369715   PMID:23395635   PMID:23671110   PMID:23690951   PMID:24038871   PMID:24875805  
PMID:25561514   PMID:26718008   PMID:32669716   PMID:35618666   PMID:38345319  


Genomics

Comparative Map Data
Tcf15
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392151,984,973 - 151,991,017 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2151,985,481 - 151,991,017 (+)EnsemblGRCm39 Ensembl
GRCm382152,143,056 - 152,149,097 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2152,143,561 - 152,149,097 (+)EnsemblGRCm38mm10GRCm38
MGSCv372151,969,345 - 151,974,833 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362151,835,013 - 151,840,538 (+)NCBIMGSCv36mm8
Celera2157,959,706 - 157,965,194 (+)NCBICelera
Cytogenetic Map2G3NCBI
cM Map274.83NCBI
TCF15
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3820604,257 - 610,309 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl20604,257 - 610,309 (-)EnsemblGRCh38hg38GRCh38
GRCh3720584,901 - 590,953 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3620532,637 - 538,910 (-)NCBINCBI36Build 36hg18NCBI36
Build 3420532,636 - 538,910NCBI
Celera20679,462 - 685,735 (-)NCBICelera
Cytogenetic Map20p13NCBI
HuRef20535,944 - 542,217 (-)NCBIHuRef
CHM1_120584,649 - 590,913 (-)NCBICHM1_1
T2T-CHM13v2.020647,994 - 654,046 (-)NCBIT2T-CHM13v2.0
Tcf15
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83161,099,301 - 161,105,083 (+)NCBIGRCr8
mRatBN7.23140,638,984 - 140,644,766 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3140,638,984 - 140,644,766 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3144,543,478 - 144,549,262 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03153,127,302 - 153,133,086 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03150,867,901 - 150,873,677 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03147,643,250 - 147,649,511 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3147,643,250 - 147,649,504 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03153,992,077 - 153,998,338 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43142,491,664 - 142,497,446 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.13142,397,247 - 142,402,918 (+)NCBI
Celera3139,391,601 - 139,397,369 (+)NCBICelera
Cytogenetic Map3q41NCBI
Tcf15
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955597446,855 - 451,949 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955597446,489 - 452,003 (-)NCBIChiLan1.0ChiLan1.0
TCF15
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2211,692,066 - 1,698,139 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1201,688,894 - 1,694,967 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v020811,907 - 817,971 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.120581,915 - 587,644 (-)NCBIpanpan1.1PanPan1.1panPan2
TCF15
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12420,274,113 - 20,281,081 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2420,274,050 - 20,280,270 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2419,925,930 - 19,932,479 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02420,965,005 - 20,971,592 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2420,964,975 - 20,971,210 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12420,240,077 - 20,246,616 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02420,345,815 - 20,352,308 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02420,776,922 - 20,783,474 (+)NCBIUU_Cfam_GSD_1.0
TCF15
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1734,626,670 - 34,633,263 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11734,626,682 - 34,632,881 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21739,268,048 - 39,274,562 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TCF15
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1255,909,945 - 55,916,186 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl255,910,030 - 55,915,600 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660788,037,064 - 8,043,307 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tcf15
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247411,689,431 - 1,694,815 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247411,689,397 - 1,694,934 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Tcf15
169 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:177
Count of miRNA genes:150
Interacting mature miRNAs:170
Transcripts:ENSMUST00000089112
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1301907Rends_mrenal disease susceptibility (mouse)Not determined2135699221169699361Mouse
1301783Bhr1_mbronchial hyperresponsiveness 1 (mouse)Not determined2142593476178442452Mouse
12790983Bwq12_mbody weight QTL 12 (mouse)2148238204181755017Mouse
1301019Bmd6_mbone mineral density 6 (mouse)Not determined2151778297181755017Mouse
12910799Pwgrq2_mpre-weaning growth rate QTL 2 (mouse)2118589253160611165Mouse
1558939Gnf1_mgrowth and fatness 1 (mouse)Not determined2143773445169117924Mouse
13825247Agoc2_magouti coat color QTL 2 (mouse)2151841920159841920Mouse
12910795Pwbwq5_mpost-weaning body weight QTL 5 (mouse)2118589253160611165Mouse
1300867Lore2_mloss of righting induced by ethanol 2 (mouse)Not determined2144515861180896594Mouse
1558917Gct8_mgranulosa cell tumorigenesis 8 (mouse)Not determined2149236907181755017Mouse
27226761Feml18_mfemur length 18, 16 week (mouse)294230345154241920Mouse
12910812Pwgrq1_mpre-weaning growth rate QTL 1 (mouse)2118589253160611165Mouse
12910814Pwbwq1_mpre-weaning body weight QTL 1 (mouse)2118589253160611165Mouse
1300751Bdt1_mbone density traits 1 (mouse)Not determined2149988902181755017Mouse
10045885Cplaq15_mcircadian period of locomotor activity 15 (mouse)Not determined2110916118154354667Mouse
10054066Bwq9_mbody weight QTL 9 (mouse)Not determined2135699221169699361Mouse
1301822Pgia2_mproteoglycan induced arthritis 2 (mouse)Not determined2123937311157937424Mouse
10043956Gnf5_mgrowth and fatness 5 (mouse)Not determined2135699221169699361Mouse
1558842Tailq2_mtail length QTL 2 (mouse)Not determined2151640941162737074Mouse
5491197Mobq5_mmultigenic obesity QTL 5 (mouse)Not determined265269746162518926Mouse
10412080Hylaq2_mHyperlocomotor activity related QTL 2 (mouse)Not determined2151640941164119146Mouse
5491196Mobq6_mmultigenic obesity QTL 6 (mouse)Not determined285724269180896594Mouse
1357862Epfq1_mepididymal fat pad weight QTL 1 (mouse)Not determined2151640941162737074Mouse
1301031Bdln3_mbody length 3 (mouse)Not determined2127664019161664118Mouse
11341717Rvfs1_mRift Valley fever susceptibility 1 (mouse)2135432544173449616Mouse
4141703Chlq13_mcirculating hormone level QTL 13 (mouse)Not determined2135699221169699361Mouse
1357484Bsbob_mBSB obesity (mouse)Not determined2143773445165665019Mouse
27226788Feml13_mfemur length 13, 10 week (mouse)2102630345159941920Mouse
4142211Nilac3_mnicotine induced locomotor activity 3 (mouse)Not determined2148664893181755017Mouse
1301294Hrtfm5_mheart failure modifier 5 (mouse)Not determined2122883015156883131Mouse
11038701Ltpr2e_mLeishmania tropica response 2e (mouse)2150212221181755017Mouse
11038702Ltpr2_mLeishmania tropica response 2 (mouse)2103095716167212356Mouse
4142450Lmr16_mleishmaniasis resistance 16 (mouse)Not determined2150212221181755017Mouse
1301085Lrnx10_mlearning-contextual 10 (mouse)Not determined2150212221181755017Mouse
11353826Bdln10_mbody length 10 (mouse)2140441482174441482Mouse
1300806Aod4_mautoimmune ovarian dysgenesis 4 (mouse)Not determined2145228719179228841Mouse
4141033Wg2d_mweight gain in high growth mice 2d (mouse)Not determined143773445160303008Mouse
1357772Scfq1_msubcutaneous fat pad weight QTL 1 (mouse)Not determined2151640941162737074Mouse
1301961Bts1_mbladder tumor susceptibility 1 (mouse)Not determined2132024159166024330Mouse
1301618Bglu1_mblood glucose level 1 (mouse)Not determined2117942930174324863Mouse
27226749Femd10_mfemur midshaft diameter 10, 16 week (mouse)2124441920168241920Mouse
1302143Bwq5_mbody weight (mouse)Not determined2127664019161664118Mouse
1302013Tbbmd3_mtotal body bone mineral density 3 (mouse)Not determined2145196949179197085Mouse
12880427V25Dq3_mvitamin D inactive form serum level QTL 3 (mouse)2129341920163341920Mouse
13504830Bacsq1_mbaculum shape QTL 1 (mouse)2145716184161016184Mouse
12801456Intmrm1_mintima/media ratio modifier 1 (mouse)2142428347176428450Mouse
11049566Lmr28e_mleishmaniasis resistance 28e (mouse)2133144911167145058Mouse
12801461Intim1_mintima modifier 1 (mouse)2142428347176428450Mouse
11049567Lmr28f_mleishmaniasis resistance 28f (mouse)2133144911167145058Mouse
1301865Hdlq19_mHDL QTL 19 (mouse)Not determined2145518775179518926Mouse
12910520Scgq3_mspontaneous crescentic glomerulonephritis QTL 3 (mouse)2151709273174389124Mouse
1300846Pbwg11_mpostnatal body weight growth 11 (mouse)Not determined2138966600172966729Mouse

Markers in Region
U18658  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm382152,148,879 - 152,149,065UniSTSGRCm38
MGSCv372151,974,615 - 151,974,801UniSTSGRCm37
Celera2157,964,976 - 157,965,162UniSTS
Cytogenetic Map2G3UniSTS
cM Map283.9UniSTS
Whitehead_YAC1 UniSTS


Sequence


Ensembl Acc Id: ENSMUST00000089112   ⟹   ENSMUSP00000086511
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl2151,985,481 - 151,991,017 (+)Ensembl
GRCm38.p6 Ensembl2152,143,561 - 152,149,097 (+)Ensembl
RefSeq Acc Id: NM_009328   ⟹   NP_033354
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm392151,985,529 - 151,991,017 (+)NCBI
GRCm382152,143,609 - 152,149,097 (+)NCBI
MGSCv372151,969,345 - 151,974,833 (+)RGD
Celera2157,959,706 - 157,965,194 (+)RGD
cM Map2 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006499100   ⟹   XP_006499163
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm392151,984,973 - 151,991,017 (+)NCBI
GRCm382152,143,056 - 152,149,097 (+)NCBI
Sequence:
RefSeq Acc Id: NP_033354   ⟸   NM_009328
- UniProtKB: Q60788 (UniProtKB/Swiss-Prot),   Q60756 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006499163   ⟸   XM_006499100
- Peptide Label: isoform X1
- Sequence:
Ensembl Acc Id: ENSMUSP00000086511   ⟸   ENSMUST00000089112
Protein Domains
bHLH

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q60756-F1-model_v2 AlphaFold Q60756 1-195 view protein structure

Promoters
RGD ID:6832920
Promoter ID:MM_KWN:32344
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:ES_Cell,   Lung
Transcripts:OTTMUST00000037667
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv362151,969,164 - 151,969,664 (+)MPROMDB
RGD ID:6879162
Promoter ID:EPDNEW_M3032
Type:single initiation site
Name:Tcf15_1
Description:Mus musculus transcription factor 15 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm382152,143,555 - 152,143,615EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:104664 AgrOrtholog
Ensembl Genes ENSMUSG00000068079 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000089112 ENTREZGENE
  ENSMUST00000089112.6 UniProtKB/Swiss-Prot
Gene3D-CATH 4.10.280.10 UniProtKB/Swiss-Prot
InterPro bHLH_dom UniProtKB/Swiss-Prot
  E-box_TF_Regulators UniProtKB/Swiss-Prot
  HLH_DNA-bd_sf UniProtKB/Swiss-Prot
KEGG Report mmu:21407 UniProtKB/Swiss-Prot
MGD MGI:104664 ENTREZGENE
NCBI Gene 21407 ENTREZGENE
PANTHER BASIC HELIX-LOOP-HELIX TRANSCRIPTION FACTOR, TWIST UniProtKB/Swiss-Prot
  TRANSCRIPTION FACTOR 15 UniProtKB/Swiss-Prot
Pfam HLH UniProtKB/Swiss-Prot
PhenoGen Tcf15 PhenoGen
PROSITE BHLH UniProtKB/Swiss-Prot
SMART HLH UniProtKB/Swiss-Prot
Superfamily-SCOP SSF47459 UniProtKB/Swiss-Prot
UniProt Q60756 ENTREZGENE
  Q60788 ENTREZGENE
  TCF15_MOUSE UniProtKB/Swiss-Prot
UniProt Secondary Q60788 UniProtKB/Swiss-Prot