Tcf7 (transcription factor 7) - Rat Genome Database

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Gene: Tcf7 (transcription factor 7) Rattus norvegicus
Analyze
Symbol: Tcf7
Name: transcription factor 7
RGD ID: 1305894
Description: Predicted to have DNA-binding transcription repressor activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and beta-catenin binding activity. Predicted to be involved in several processes, including T cell differentiation; canonical Wnt signaling pathway involved in negative regulation of apoptotic process; and embryonic morphogenesis. Predicted to localize to beta-catenin-TCF complex; euchromatin; and nuclear body. Orthologous to human TCF7 (transcription factor 7); PARTICIPATES IN Wnt signaling, canonical pathway; acute myeloid leukemia pathway; arrhythmogenic right ventricular cardiomyopathy pathway; INTERACTS WITH amphetamine; cadmium dichloride; cisplatin.
Type: protein-coding
RefSeq Status: MODEL
Also known as: LOC363595; transcription factor 7 (T-cell specific, HMG-box); transcription factor 7, T-cell specific
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21036,423,443 - 36,454,350 (-)NCBI
Rnor_6.0 Ensembl1037,617,279 - 37,645,802 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01037,616,033 - 37,646,027 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01037,389,506 - 37,419,457 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41037,686,862 - 37,716,831 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11037,693,621 - 37,723,030 (-)NCBI
Celera1035,778,033 - 35,807,975 (-)NCBICelera
Cytogenetic Map10q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References

Additional References at PubMed
PMID:1827138   PMID:9462507   PMID:9488439   PMID:12235125   PMID:15057272   PMID:17218525   PMID:18579517   PMID:20128911   PMID:22723415   PMID:23562159  


Genomics

Comparative Map Data
Tcf7
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21036,423,443 - 36,454,350 (-)NCBI
Rnor_6.0 Ensembl1037,617,279 - 37,645,802 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01037,616,033 - 37,646,027 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01037,389,506 - 37,419,457 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41037,686,862 - 37,716,831 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11037,693,621 - 37,723,030 (-)NCBI
Celera1035,778,033 - 35,807,975 (-)NCBICelera
Cytogenetic Map10q22NCBI
TCF7
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl5134,114,681 - 134,151,865 (+)EnsemblGRCh38hg38GRCh38
GRCh385134,114,681 - 134,148,229 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh375133,450,372 - 133,483,901 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 365133,478,301 - 133,511,819 (+)NCBINCBI36hg18NCBI36
Celera5129,574,095 - 129,607,613 (+)NCBI
Cytogenetic Map5q31.1NCBI
HuRef5128,635,317 - 128,668,890 (+)NCBIHuRef
CHM1_15132,882,980 - 132,916,497 (+)NCBICHM1_1
Tcf7
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391152,137,347 - 52,174,211 (-)NCBIGRCm39mm39
GRCm39 Ensembl1152,143,198 - 52,174,158 (-)Ensembl
GRCm381152,246,527 - 52,283,383 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1152,252,371 - 52,283,331 (-)EnsemblGRCm38mm10GRCm38
MGSCv371152,066,106 - 52,096,073 (-)NCBIGRCm37mm9NCBIm37
MGSCv361152,096,027 - 52,125,994 (-)NCBImm8
Celera1156,821,774 - 56,852,195 (-)NCBICelera
Cytogenetic Map11B1.3NCBI
cM Map1131.86NCBI
Tcf7
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554085,362,084 - 5,388,527 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554085,362,423 - 5,388,684 (+)NCBIChiLan1.0ChiLan1.0
TCF7
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.15135,671,630 - 135,704,417 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5135,671,095 - 135,702,734 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v05129,518,134 - 129,549,972 (+)NCBIMhudiblu_PPA_v0panPan3
TCF7
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11122,313,113 - 22,346,221 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1122,313,105 - 22,344,004 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1121,059,022 - 21,092,131 (+)NCBI
ROS_Cfam_1.01123,113,932 - 23,147,114 (+)NCBI
UMICH_Zoey_3.11121,814,042 - 21,847,134 (+)NCBI
UNSW_CanFamBas_1.01121,679,173 - 21,712,308 (+)NCBI
UU_Cfam_GSD_1.01122,321,753 - 22,354,875 (+)NCBI
Tcf7
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213114,092,704 - 114,122,991 (-)NCBI
SpeTri2.0NW_0049366471,096,726 - 1,125,753 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TCF7
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl2136,422,712 - 136,458,037 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.12136,422,740 - 136,456,323 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.22142,042,088 - 142,051,487 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TCF7
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12336,919,648 - 36,953,088 (+)NCBI
ChlSab1.1 Ensembl2336,919,745 - 36,951,192 (+)Ensembl
Tcf7
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473338,076,800 - 38,104,265 (-)NCBI

Position Markers
BF392792  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21036,430,435 - 36,430,608 (+)MAPPER
Rnor_6.01037,623,024 - 37,623,196NCBIRnor6.0
Rnor_5.01037,396,496 - 37,396,668UniSTSRnor5.0
RGSC_v3.41037,693,864 - 37,694,036UniSTSRGSC3.4
Celera1035,785,024 - 35,785,196UniSTS
RH 3.4 Map10389.8UniSTS
Cytogenetic Map10q22UniSTS
PMC126018P1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21036,427,772 - 36,428,998 (+)MAPPER
Rnor_6.01037,620,363 - 37,621,586NCBIRnor6.0
Rnor_5.01037,393,836 - 37,395,058UniSTSRnor5.0
RGSC_v3.41037,691,203 - 37,692,426UniSTSRGSC3.4
Celera1035,782,363 - 35,783,586UniSTS
Cytogenetic Map10q22UniSTS
UniSTS:498411  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21036,424,434 - 36,425,095 (+)MAPPER
Rnor_6.01037,617,025 - 37,617,685NCBIRnor6.0
Rnor_5.01037,390,498 - 37,391,158UniSTSRnor5.0
RGSC_v3.41037,687,865 - 37,688,525UniSTSRGSC3.4
Celera1035,779,025 - 35,779,685UniSTS
Cytogenetic Map10q22UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138594330Rat
7411611Foco17Food consumption QTL 1718.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)10142669970Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)10144902893Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1076442166221621Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)10587753664401490Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10622909575983805Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10642907599492409Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10752145052521450Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109841807108540162Rat
9590310Scort19Serum corticosterone level QTL 196.30.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101263951357639513Rat
9590268Scort13Serum corticosterone level QTL 133.260.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101263951357639513Rat
9589136Insul27Insulin level QTL 2710.460.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)101263951357639513Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101482789492423564Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014827894107857673Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014827894110992275Rat
1354587Kidm21Kidney mass QTL 213.3kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)101537547462469074Rat
631564Apr3Acute phase response QTL 33.9blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)101646873661468736Rat
6893350Bw99Body weight QTL 990.870.16body mass (VT:0001259)body weight (CMO:0000012)11712154262121542Rat
6893352Bw100Body weight QTL 1000.330.6body mass (VT:0001259)body weight (CMO:0000012)11712154262121542Rat
631532Cm50Cardiac mass QTL 506.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)101824639453637634Rat
1598852Anxrr19Anxiety related response QTL 195.07body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)101940281464402814Rat
1554317Bmd4Bone mineral density QTL 49.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)1020170031102897474Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102152390683549467Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)12152390690312401Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)12152390690312401Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)12152390690312401Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)12152390690312401Rat
70198BpQTLcluster9Blood pressure QTL cluster 92.94arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102152390690312401Rat
1581497Esta1Estrogen-induced thymic atrophy QTL 1thymus mass (VT:0004954)thymus wet weight (CMO:0000855)102170776664648311Rat
631531Iresp2Immunoglobin response QTL26.3blood immunoglobulin E amount (VT:0002492)serum total immunoglobulin E level (CMO:0001542)102240281738204229Rat
724556Pur2Proteinuria QTL 25.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)102290149793886300Rat
1331762Rf40Renal function QTL 403.873kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)102386101566539843Rat
1331791Cm31Cardiac mass QTL 313.84606heart mass (VT:0007028)heart wet weight (CMO:0000069)1023861015112626471Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1024483076107857673Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1024483076107857673Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1024483076107857673Rat
634329Pia15Pristane induced arthritis QTL 153.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)102488408447487910Rat
70224Eae3Experimental allergic encephalomyelitis QTL 34.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)102723753064648311Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)1027237530101482600Rat
631542Bp82Blood pressure QTL 826.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1027237530102427718Rat
2300171Bmd58Bone mineral density QTL 584.90.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)102878928073789280Rat
1600371Mcs21Mammary carcinoma susceptibility QTL 213mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)103002135454057745Rat
2292441Bp308Blood pressure QTL 308arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)103009990975099909Rat
10402859Bp381Blood pressure QTL 3810.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)103009990975099909Rat
724527Bp148Blood pressure QTL 1480.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)103098380575983805Rat
1576311Pia26Pristane induced arthritis QTL 26joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103191939778343192Rat
1578779Tcas10Tongue tumor susceptibility QTL 103.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)103317903078179030Rat
631557Bp136Blood pressure QTL 1360.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)103334319278343192Rat
1576319Cia29Collagen induced arthritis QTL 29joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103513942480139424Rat
61332Eau3Experimental allergic uveoretinitis QTL 30.004uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)103566946546851407Rat
6893342Cm78Cardiac mass QTL 780.10.88heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)103618592982675365Rat
631552Vetf2Vascular elastic tissue fragility QTL 24.50.0002aorta elastic tissue integrity trait (VT:0010556)artery internal elastic lamina non-tumorous lesion count (CMO:0001913)103618592995845311Rat
1354614Hpcl1Hepatic cholesterol level QTL 13.3liver cholesterol amount (VT:0010498)liver cholesterol level (CMO:0001597)103658437353645194Rat
1358897Stresp6Stress response QTL 64.170.022blood norepinephrine amount (VT:0005663)plasma norepinephrine level (CMO:0001010)103658437366539843Rat
61441Btemp1Thermal response to stress QTL 14body temperature trait (VT:0005535)core body temperature (CMO:0001036)103658456066015527Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:190
Count of miRNA genes:135
Interacting mature miRNAs:150
Transcripts:ENSRNOT00000008022, ENSRNOT00000064865
Prediction methods:Microtar, Miranda, Rnahybrid
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.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 2 2 12 4 18 4 6 18 27 8
Low 1 41 45 37 1 37 8 11 68 17 14 3 8
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_006220666 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006220667 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006220668 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006220669 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006246362 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006246363 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006246364 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006246365 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017597629 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017597630 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017604056 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017604057 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039087190 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC130253 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473948 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ233211 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000219 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000008022   ⟹   ENSRNOP00000008022
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1037,617,279 - 37,645,802 (-)Ensembl
RefSeq Acc Id: XM_006220666   ⟹   XP_006220728
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera1035,778,033 - 35,807,975 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006220667   ⟹   XP_006220729
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera1035,779,644 - 35,807,975 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006220668   ⟹   XP_006220730
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera1035,779,606 - 35,807,975 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006220669   ⟹   XP_006220731
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera1035,778,033 - 35,807,975 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006246362   ⟹   XP_006246424
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21036,423,443 - 36,454,350 (-)NCBI
Rnor_6.01037,616,033 - 37,646,027 (-)NCBI
Rnor_5.01037,389,506 - 37,419,457 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006246363   ⟹   XP_006246425
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21036,424,996 - 36,454,350 (-)NCBI
Rnor_6.01037,617,644 - 37,646,027 (-)NCBI
Rnor_5.01037,389,506 - 37,419,457 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006246364   ⟹   XP_006246426
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21036,424,967 - 36,454,350 (-)NCBI
Rnor_6.01037,617,606 - 37,646,027 (-)NCBI
Rnor_5.01037,389,506 - 37,419,457 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006246365   ⟹   XP_006246427
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21036,423,443 - 36,454,350 (-)NCBI
Rnor_6.01037,616,033 - 37,646,027 (-)NCBI
Rnor_5.01037,389,506 - 37,419,457 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017597629   ⟹   XP_017453118
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21036,423,443 - 36,454,350 (-)NCBI
Rnor_6.01037,616,033 - 37,646,027 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017597630   ⟹   XP_017453119
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01037,616,033 - 37,646,027 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017604056   ⟹   XP_017459545
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera1035,778,033 - 35,807,975 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017604057   ⟹   XP_017459546
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera1035,778,033 - 35,807,975 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039087190   ⟹   XP_038943118
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21036,423,443 - 36,445,862 (-)NCBI
Reference Sequences
RefSeq Acc Id: XP_006220731   ⟸   XM_006220669
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_006220728   ⟸   XM_006220666
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_006220730   ⟸   XM_006220668
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_006220729   ⟸   XM_006220667
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_006246427   ⟸   XM_006246365
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_006246424   ⟸   XM_006246362
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006246426   ⟸   XM_006246364
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_006246425   ⟸   XM_006246363
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017459546   ⟸   XM_017604057
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017459545   ⟸   XM_017604056
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017453119   ⟸   XM_017597630
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017453118   ⟸   XM_017597629
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000008022   ⟸   ENSRNOT00000008022
RefSeq Acc Id: XP_038943118   ⟸   XM_039087190
- Peptide Label: isoform X6
Protein Domains
HMG box

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
10 37617616 37617617 C T snv Buf/N (MCW), M520/N (MCW), BBDP/Wor (RGD), GK/Ox (RGD), LN/MavRrrc (RGD), WKY/Gcrc (RGD), SHR/NHsd (RGD), SHRSP/Gcrc (RGD), SR/JrHsd (RGD), WAG/Rij (RGD), LL/MavRrrc (RGD)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305894 AgrOrtholog
Ensembl Genes ENSRNOG00000005872 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000008022 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000008022 UniProtKB/TrEMBL
Gene3D-CATH 1.10.30.10 UniProtKB/TrEMBL
  4.10.900.10 UniProtKB/TrEMBL
InterPro Catenin_binding_dom UniProtKB/TrEMBL
  CTNNB1-bd_N UniProtKB/TrEMBL
  HMG_box_dom_sf UniProtKB/TrEMBL
  HMG_superfamily UniProtKB/TrEMBL
  TCF/LEF UniProtKB/TrEMBL
  Tcf7 UniProtKB/TrEMBL
NCBI Gene 363595 ENTREZGENE
PANTHER PTHR10373 UniProtKB/TrEMBL
  PTHR10373:SF33 UniProtKB/TrEMBL
Pfam CTNNB1_binding UniProtKB/TrEMBL
  HMG_box UniProtKB/TrEMBL
PhenoGen Tcf7 PhenoGen
PROSITE HMG_BOX_2 UniProtKB/TrEMBL
SMART HMG UniProtKB/TrEMBL
Superfamily-SCOP HMG-box UniProtKB/TrEMBL
UniProt D3ZLD0_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-05-18 Tcf7  transcription factor 7  Tcf7  transcription factor 7 (T-cell specific, HMG-box)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-02-02 Tcf7  transcription factor 7 (T-cell specific, HMG-box)  Tcf7  transcription factor 7, T-cell specific  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Tcf7  transcription factor 7, T-cell specific   Tcf7_predicted  transcription factor 7, T-cell specific (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Tcf7_predicted  transcription factor 7, T-cell specific (predicted)      Symbol and Name status set to approved 70820 APPROVED