Tcf4 (transcription factor 4) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Tcf4 (transcription factor 4) Rattus norvegicus
Analyze
Symbol: Tcf4
Name: transcription factor 4
RGD ID: 69271
Description: Exhibits bHLH transcription factor binding activity and double-stranded DNA binding activity. Involved in positive regulation of transcription by RNA polymerase II. Predicted to localize to beta-catenin-TCF7L2 complex and chromatin. Human ortholog(s) of this gene implicated in Fuchs' endothelial dystrophy and Pitt-Hopkins syndrome. Orthologous to human TCF4 (transcription factor 4); INTERACTS WITH 17alpha-ethynylestradiol; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: immunoglobulin transcription factor 2; ITF-2; R8f DNA-binding protein; RITF-2; SEF-2; SL3-3 enhancer factor 2; TCF-4
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
mRatBN7.21862,941,739 - 63,288,126 (+)NCBI
Rnor_6.0 Ensembl1865,155,685 - 65,507,977 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01865,285,320 - 65,507,983 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01864,471,373 - 64,694,036 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41866,135,863 - 66,359,984 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11866,209,063 - 66,433,179 (+)NCBI
Celera1861,145,273 - 61,368,542 (+)NCBICelera
Cytogenetic Map18q12.1NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (EXP,ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2-butoxyethanol  (ISO)
3,4-methylenedioxymethamphetamine  (EXP)
4-hydroxyphenyl retinamide  (ISO)
4-tert-Octylphenol  (EXP)
5-aza-2'-deoxycytidine  (ISO)
acetamide  (EXP)
acetylsalicylic acid  (ISO)
acrolein  (ISO)
actinomycin D  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
ammonium chloride  (EXP)
arsenous acid  (ISO)
atrazine  (EXP)
benzo[a]pyrene  (EXP,ISO)
benzo[e]pyrene  (ISO)
Benzo[k]fluoranthene  (ISO)
bilirubin IXalpha  (ISO)
bisphenol A  (EXP,ISO)
bortezomib  (ISO)
bosutinib  (ISO)
Butylbenzyl phthalate  (ISO)
C60 fullerene  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (EXP)
carbon nanotube  (ISO)
chloroprene  (EXP)
chlorpyrifos  (EXP)
chromium(6+)  (ISO)
cisplatin  (ISO)
cobalt dichloride  (EXP,ISO)
cocaine  (EXP)
copper atom  (ISO)
copper(0)  (ISO)
crocidolite asbestos  (ISO)
cyclosporin A  (ISO)
Deguelin  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (EXP,ISO)
diethylstilbestrol  (EXP)
dioxygen  (ISO)
dorsomorphin  (ISO)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
flavonoids  (EXP)
folic acid  (ISO)
folpet  (ISO)
genistein  (ISO)
gentamycin  (EXP)
geraniol  (ISO)
glyphosate  (EXP)
hydroquinone  (ISO)
lipopolysaccharide  (ISO)
lithium chloride  (ISO)
methamphetamine  (ISO)
methapyrilene  (ISO)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
N-tosyl-L-phenylalanyl chloromethyl ketone  (ISO)
nickel sulfate  (ISO)
nitrofen  (EXP)
nitroglycerin  (ISO)
okadaic acid  (ISO)
oxaliplatin  (EXP)
ozone  (ISO)
p-tert-Amylphenol  (EXP)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
phenobarbital  (ISO)
potassium chromate  (ISO)
progesterone  (ISO)
quercetin  (EXP,ISO)
resveratrol  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
succimer  (ISO)
sulindac  (ISO)
tamoxifen  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone enanthate  (ISO)
tetrachloromethane  (EXP)
topotecan  (EXP)
torcetrapib  (ISO)
trichostatin A  (ISO)
triptonide  (ISO)
troglitazone  (ISO)
tungsten  (ISO)
tunicamycin  (ISO)
undecane  (EXP)
valproic acid  (EXP,ISO)
venlafaxine hydrochloride  (EXP)
vitamin K  (EXP)
warfarin  (EXP)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References

Additional References at PubMed
PMID:1681116   PMID:2105528   PMID:8978694   PMID:8999959   PMID:10903890   PMID:11802795   PMID:11955446   PMID:12651860   PMID:14762206   PMID:15351717   PMID:16425294   PMID:16950124  
PMID:18214987   PMID:19796622   PMID:20231428   PMID:21828274   PMID:21880741   PMID:23740243   PMID:24192035   PMID:25609649   PMID:25963533   PMID:26971948   PMID:27090258   PMID:27665494  
PMID:28951451   PMID:29739711   PMID:32045596  


Genomics

Comparative Map Data
Tcf4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21862,941,739 - 63,288,126 (+)NCBI
Rnor_6.0 Ensembl1865,155,685 - 65,507,977 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01865,285,320 - 65,507,983 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01864,471,373 - 64,694,036 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41866,135,863 - 66,359,984 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11866,209,063 - 66,433,179 (+)NCBI
Celera1861,145,273 - 61,368,542 (+)NCBICelera
Cytogenetic Map18q12.1NCBI
TCF4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1855,222,185 - 55,664,787 (-)EnsemblGRCh38hg38GRCh38
GRCh381855,222,185 - 55,635,957 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371852,889,416 - 53,303,188 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361851,040,560 - 51,406,858 (-)NCBINCBI36hg18NCBI36
Build 341851,045,966 - 51,406,441NCBI
Celera1849,606,934 - 49,973,119 (-)NCBI
Cytogenetic Map18q21.2NCBI
HuRef1849,599,225 - 50,013,477 (-)NCBIHuRef
CHM1_11852,884,825 - 53,299,013 (-)NCBICHM1_1
Tcf4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391869,476,500 - 69,821,038 (+)NCBIGRCm39mm39
GRCm39 Ensembl1869,476,427 - 69,822,150 (+)Ensembl
GRCm381869,343,429 - 69,687,967 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1869,343,356 - 69,689,079 (+)EnsemblGRCm38mm10GRCm38
MGSCv371869,504,146 - 69,847,621 (+)NCBIGRCm37mm9NCBIm37
MGSCv361869,469,890 - 69,809,713 (+)NCBImm8
Celera1870,630,746 - 70,974,890 (+)NCBICelera
Cytogenetic Map18E2NCBI
Tcf4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540239,735,600 - 40,066,151 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540239,735,596 - 40,066,151 (-)NCBIChiLan1.0ChiLan1.0
TCF4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11851,938,357 - 52,351,679 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1851,938,357 - 52,352,030 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01848,603,069 - 48,969,010 (-)NCBIMhudiblu_PPA_v0panPan3
TCF4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1120,060,788 - 20,417,367 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl120,060,788 - 20,417,348 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha121,044,957 - 21,401,584 (+)NCBI
ROS_Cfam_1.0119,945,098 - 20,307,635 (+)NCBI
UMICH_Zoey_3.1120,000,058 - 20,356,878 (+)NCBI
UNSW_CanFamBas_1.0119,895,148 - 20,251,707 (+)NCBI
UU_Cfam_GSD_1.0120,166,172 - 20,523,442 (+)NCBI
Tcf4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494433,171,849 - 33,525,514 (+)NCBI
SpeTri2.0NW_0049364978,410,882 - 8,765,678 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TCF4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1104,719,137 - 105,079,919 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11104,718,809 - 105,079,919 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21115,117,555 - 115,353,531 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TCF4
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11824,116,595 - 24,483,037 (+)NCBI
ChlSab1.1 Ensembl1824,116,547 - 24,478,228 (+)Ensembl
Tcf4
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624792686,360 - 1,030,199 (-)NCBI

Position Markers
D18Rat87  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01865,366,908 - 65,367,133NCBIRnor6.0
Rnor_5.01864,552,961 - 64,553,186UniSTSRnor5.0
RGSC_v3.41866,217,583 - 66,217,809RGDRGSC3.4
RGSC_v3.41866,217,584 - 66,217,809UniSTSRGSC3.4
RGSC_v3.11866,290,766 - 66,291,155RGD
Celera1861,226,357 - 61,226,604UniSTS
SHRSP x BN Map1837.6799UniSTS
SHRSP x BN Map1837.6799RGD
Cytogenetic Map18q12.1UniSTS
D18Arb7  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01865,420,163 - 65,420,329NCBIRnor6.0
Rnor_5.01864,606,216 - 64,606,382UniSTSRnor5.0
RGSC_v3.41866,272,158 - 66,272,324UniSTSRGSC3.4
RGSC_v3.41866,272,157 - 66,272,324RGDRGSC3.4
RGSC_v3.11866,345,358 - 66,345,525RGD
Celera1861,280,814 - 61,281,024UniSTS
RH 3.4 Map18662.0RGD
RH 3.4 Map18662.0UniSTS
RH 2.0 Map18259.9RGD
SHRSP x BN Map1837.6799RGD
FHH x ACI Map1843.06RGD
Cytogenetic Map18q12.1UniSTS
BE108561  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01865,420,927 - 65,421,086NCBIRnor6.0
Rnor_5.01864,606,980 - 64,607,139UniSTSRnor5.0
RGSC_v3.41866,272,922 - 66,273,081UniSTSRGSC3.4
Celera1861,281,622 - 61,281,781UniSTS
RH 3.4 Map18655.5UniSTS
Cytogenetic Map18q12.1UniSTS
RH142887  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01865,291,324 - 65,291,526NCBIRnor6.0
Rnor_5.01864,477,377 - 64,477,579UniSTSRnor5.0
RGSC_v3.41866,141,867 - 66,142,069UniSTSRGSC3.4
Celera1861,151,277 - 61,151,479UniSTS
RH 3.4 Map18654.5UniSTS
Cytogenetic Map18q12.1UniSTS
AW534410  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01865,421,671 - 65,421,839NCBIRnor6.0
Rnor_5.01864,607,724 - 64,607,892UniSTSRnor5.0
RGSC_v3.41866,273,666 - 66,273,834UniSTSRGSC3.4
Celera1861,282,366 - 61,282,534UniSTS
RH 3.4 Map18656.7UniSTS
Cytogenetic Map18q12.1UniSTS
BE120385  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01865,293,155 - 65,293,374NCBIRnor6.0
Rnor_5.01864,479,208 - 64,479,427UniSTSRnor5.0
RGSC_v3.41866,143,698 - 66,143,917UniSTSRGSC3.4
Celera1861,153,108 - 61,153,327UniSTS
RH 3.4 Map18654.5UniSTS
Cytogenetic Map18q12.1UniSTS
BE116587  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01865,474,323 - 65,474,472NCBIRnor6.0
Rnor_5.01864,660,376 - 64,660,525UniSTSRnor5.0
RGSC_v3.41866,326,318 - 66,326,467UniSTSRGSC3.4
Celera1861,335,006 - 61,335,155UniSTS
RH 3.4 Map18656.7UniSTS
Cytogenetic Map18q12.1UniSTS
STS-Z40794  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01865,500,290 - 65,500,627NCBIRnor6.0
Rnor_5.01864,686,343 - 64,686,680UniSTSRnor5.0
RGSC_v3.41866,352,292 - 66,352,629UniSTSRGSC3.4
Celera1861,360,850 - 61,361,187UniSTS
Cytogenetic Map18q12.1UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2293708Bss46Bone structure and strength QTL 468.80.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)181569587268524999Rat
1578661Bss20Bone structure and strength QTL 203.7femur morphology trait (VT:0000559)femoral neck cross-sectional area (CMO:0001697)181569587287080053Rat
1578667Bss21Bone structure and strength QTL 213.5femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)181569587287080053Rat
1358193Emca2Estrogen-induced mammary cancer QTL 21.6mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)181903103068436105Rat
1600373Mamtr6Mammary tumor resistance QTL 6mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)182028575887080053Rat
7387267Uae42Urinary albumin excretion QTL 420.61urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)142163949166639491Rat
1331741Bp232Blood pressure QTL 2323.59112arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)182260373687074531Rat
1331733Bp233Blood pressure QTL 2333.97196arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)182596102681761656Rat
2300157Bmd66Bone mineral density QTL 6613.10.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)183053361475533614Rat
2300177Bmd65Bone mineral density QTL 6519.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)183053361475533614Rat
2293704Bss35Bone structure and strength QTL 354.590.0002femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)183053361475533614Rat
9590318Scort22Serum corticosterone level QTL 227.640.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)183136134176361341Rat
1331754Bp230Blood pressure QTL 2304.61609arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183136134176361341Rat
9589816Gluco68Glucose level QTL 687.250.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)183136134176361341Rat
8694378Bw157Body weight QTL 1573.590.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)183136134176361341Rat
738005Anxrr11Anxiety related response QTL 113.4exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)183160842476608424Rat
61429Cia17Collagen induced arthritis QTL 174.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)183267035273016546Rat
2303120Mamtr8Mammary tumor resistance QTL 80.001mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)183267035287080053Rat
631274Sprol1Serum protein level QTL 15.3blood total protein amount (VT:0005567)serum total protein level (CMO:0000661)183270402280696226Rat
631518Bw11Body weight QTL 112.8body mass (VT:0001259)body weight (CMO:0000012)183822191983221919Rat
61367Iddm4Insulin dependent diabetes mellitus QTL 42.330.0074blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)184037576985375769Rat
6893683Bw110Body weight QTL 1102.70.002body mass (VT:0001259)body weight (CMO:0000012)184500219488201929Rat
1598826Anxrr20Anxiety related response QTL 203.04body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)184631947688201929Rat
9589041Epfw12Epididymal fat weight QTL 1217.080.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)184913092088201929Rat
8694432Bw165Body weight QTL 1653.810.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)184913092088201929Rat
8694366Abfw8Abdominal fat weight QTL 86.380.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)184913092088201929Rat
2303571Bw92Body weight QTL 923body mass (VT:0001259)body weight (CMO:0000012)185137581688201929Rat
2303584Gluco55Glucose level QTL 552blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)185137581688201929Rat
7411719Strs5Sensitivity to stroke QTL 59.4cerebrum integrity trait (VT:0010549)percentage of study population developing cerebrovascular lesions during a period of time (CMO:0000932)185160903267502266Rat
2293658Bmd23Bone mineral density QTL 237.30.0001femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)185303349468524999Rat
738008Hcar14Hepatocarcinoma resistance QTL 144.3liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion number (CMO:0001462)185303349487080053Rat
1331752Bw27Body weight QTL 272.963body mass (VT:0001259)body weight (CMO:0000012)185386125267502266Rat
1359020Ppulsi2Prepulse inhibition QTL 22.71prepulse inhibition trait (VT:0003088)acoustic startle response measurement (CMO:0001519)185386125277151443Rat
1600375Mcs22Mammary carcinoma susceptibility QTL 223.3mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)185410837568819562Rat
631509Sald2Serum aldosterone level QTL 22.9blood aldosterone amount (VT:0005346)serum aldosterone level (CMO:0000487)185410837571692768Rat
2301417Bp319Blood pressure QTL 3190.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)185410837579575348Rat
12880368Bw187Body weight QTL 1870.045body mass (VT:0001259)body weight (CMO:0000012)185410837579575348Rat
12904067Cm122Cardiac mass QTL 1220.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)185410837579575348Rat
12904069Cm123Cardiac mass QTL 1230.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)185410837579575348Rat
12904070Cm124Cardiac mass QTL 1240.01heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)185410837579575348Rat
12904071Am18Aortic mass QTL 180.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)185410837579575348Rat
12904073Kidm71Kidney mass QTL 710.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)185410837579575348Rat
1300125Rf26Renal function QTL 263.2urine potassium amount (VT:0010539)urine potassium excretion rate (CMO:0000761)185410847467502122Rat
1558649Bw58Body weight QTL 583.40.0005body mass (VT:0001259)body weight (CMO:0000012)185744867888201929Rat
6893359Bw103Body weight QTL 1031.20.12body mass (VT:0001259)body weight (CMO:0000012)185744867888201929Rat
6893368Bw107Body weight QTL 1070.30.5body mass (VT:0001259)body weight (CMO:0000012)185744867888201929Rat
1298072Cia26Collagen induced arthritis QTL 263.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)185819630088201929Rat
631834Sach3Saccharin preference QTL 33.90.01consumption behavior trait (VT:0002069)calculated saccharin drink intake volume (CMO:0001600)186097150868524999Rat
2312600Bp341Blood pressure QTL 3410.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)186149953173016546Rat
70185BpQTLcluster15Blood pressure QTL cluster 154.61arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)186190135479948616Rat
70185BpQTLcluster15Blood pressure QTL cluster 154.61arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)186190135479948616Rat
70185BpQTLcluster15Blood pressure QTL cluster 154.61arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)186190135479948616Rat
70185BpQTLcluster15Blood pressure QTL cluster 154.61arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)186190135479948616Rat
2301969Bp324Blood pressure QTL 3244.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)186190135479948616Rat
1331770Bp234Blood pressure QTL 2343.807arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)186198564873018740Rat
6903356Bp354Blood pressure QTL 3544.6arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)186198564888201929Rat
631675Iddm15Insulin dependent diabetes mellitus QTL 15urine glucose amount (VT:0001758)percentage of study population developing diabetes mellitus during a period of time (CMO:0001114)186280540680696375Rat
61384Bp48Blood pressure QTL 4819.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)186280540680696375Rat
724542Kidm2Kidney mass QTL 22.6kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)186300981288201929Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:33
Count of miRNA genes:26
Interacting mature miRNAs:32
Transcripts:ENSRNOT00000020431
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.


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 3 41 20 4 19 4 6 8 74 26 34 11 6
Low 2 37 37 37 2 3 9 7 2
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_053369 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097157 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097158 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097159 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097160 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097161 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097162 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097163 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097164 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097165 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097166 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097167 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097168 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097169 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097170 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097171 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097172 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097173 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097174 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097176 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097177 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097178 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097179 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097180 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097181 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097182 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097183 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097184 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097185 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097186 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097187 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097188 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097189 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097190 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097191 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AF149284 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473971 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221525 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ226283 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ227003 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232404 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232495 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ233045 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000301 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U09228 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000020431   ⟹   ENSRNOP00000020431
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1865,285,318 - 65,507,977 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000080844   ⟹   ENSRNOP00000070343
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1865,388,685 - 65,507,590 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000081797   ⟹   ENSRNOP00000070021
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1865,155,685 - 65,507,592 (+)Ensembl
RefSeq Acc Id: NM_053369   ⟹   NP_445821
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21862,944,515 - 63,283,346 (+)NCBI
Rnor_6.01865,285,320 - 65,507,983 (+)NCBI
Rnor_5.01864,471,373 - 64,694,036 (+)NCBI
RGSC_v3.41866,135,863 - 66,359,984 (+)RGD
Celera1861,145,273 - 61,368,542 (+)RGD
Sequence:
RefSeq Acc Id: XM_039097157   ⟹   XP_038953085
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21862,943,046 - 63,288,126 (+)NCBI
RefSeq Acc Id: XM_039097158   ⟹   XP_038953086
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21862,943,418 - 63,288,126 (+)NCBI
RefSeq Acc Id: XM_039097159   ⟹   XP_038953087
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21862,941,739 - 63,288,126 (+)NCBI
RefSeq Acc Id: XM_039097160   ⟹   XP_038953088
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21862,943,787 - 63,288,126 (+)NCBI
RefSeq Acc Id: XM_039097161   ⟹   XP_038953089
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21862,943,050 - 63,288,126 (+)NCBI
RefSeq Acc Id: XM_039097162   ⟹   XP_038953090
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21862,943,045 - 63,288,126 (+)NCBI
RefSeq Acc Id: XM_039097163   ⟹   XP_038953091
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21862,943,045 - 63,288,126 (+)NCBI
RefSeq Acc Id: XM_039097164   ⟹   XP_038953092
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21862,943,045 - 63,288,126 (+)NCBI
RefSeq Acc Id: XM_039097165   ⟹   XP_038953093
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21862,943,044 - 63,288,126 (+)NCBI
RefSeq Acc Id: XM_039097166   ⟹   XP_038953094
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21862,943,045 - 63,288,126 (+)NCBI
RefSeq Acc Id: XM_039097167   ⟹   XP_038953095
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21862,943,045 - 63,288,126 (+)NCBI
RefSeq Acc Id: XM_039097168   ⟹   XP_038953096
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21862,943,044 - 63,288,126 (+)NCBI
RefSeq Acc Id: XM_039097169   ⟹   XP_038953097
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21862,941,759 - 63,288,126 (+)NCBI
RefSeq Acc Id: XM_039097170   ⟹   XP_038953098
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21862,943,418 - 63,288,126 (+)NCBI
RefSeq Acc Id: XM_039097171   ⟹   XP_038953099
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21862,943,047 - 63,288,126 (+)NCBI
RefSeq Acc Id: XM_039097172   ⟹   XP_038953100
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21862,943,046 - 63,288,126 (+)NCBI
RefSeq Acc Id: XM_039097173   ⟹   XP_038953101
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21863,116,364 - 63,288,126 (+)NCBI
RefSeq Acc Id: XM_039097174   ⟹   XP_038953102
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21863,116,475 - 63,288,126 (+)NCBI
RefSeq Acc Id: XM_039097176   ⟹   XP_038953104
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21863,116,475 - 63,288,126 (+)NCBI
RefSeq Acc Id: XM_039097177   ⟹   XP_038953105
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21863,098,138 - 63,288,126 (+)NCBI
RefSeq Acc Id: XM_039097178   ⟹   XP_038953106
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21862,941,760 - 63,288,126 (+)NCBI
RefSeq Acc Id: XM_039097179   ⟹   XP_038953107
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21862,943,419 - 63,288,126 (+)NCBI
RefSeq Acc Id: XM_039097180   ⟹   XP_038953108
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21863,098,138 - 63,288,126 (+)NCBI
RefSeq Acc Id: XM_039097181   ⟹   XP_038953109
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21862,941,760 - 63,288,126 (+)NCBI
RefSeq Acc Id: XM_039097182   ⟹   XP_038953110
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21863,162,517 - 63,288,126 (+)NCBI
RefSeq Acc Id: XM_039097183   ⟹   XP_038953111
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21862,943,042 - 63,278,510 (+)NCBI
RefSeq Acc Id: XM_039097184   ⟹   XP_038953112
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21863,118,042 - 63,288,126 (+)NCBI
RefSeq Acc Id: XM_039097185   ⟹   XP_038953113
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21863,118,042 - 63,288,126 (+)NCBI
RefSeq Acc Id: XM_039097186   ⟹   XP_038953114
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21863,192,711 - 63,288,126 (+)NCBI
RefSeq Acc Id: XM_039097187   ⟹   XP_038953115
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21863,192,708 - 63,288,126 (+)NCBI
RefSeq Acc Id: XM_039097188   ⟹   XP_038953116
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21863,192,708 - 63,288,126 (+)NCBI
RefSeq Acc Id: XM_039097189   ⟹   XP_038953117
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21863,192,709 - 63,288,126 (+)NCBI
RefSeq Acc Id: XM_039097190   ⟹   XP_038953118
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21863,192,706 - 63,288,126 (+)NCBI
RefSeq Acc Id: XM_039097191   ⟹   XP_038953119
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21863,193,154 - 63,288,126 (+)NCBI
Protein Sequences
Protein RefSeqs NP_445821 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953085 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953086 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953087 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953088 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953089 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953090 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953091 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953092 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953093 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953094 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953095 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953096 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953097 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953098 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953099 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953100 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953101 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953102 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953104 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953105 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953106 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953107 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953108 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953109 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953110 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953111 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953112 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953113 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953114 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953115 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953116 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953117 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953118 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953119 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA21122 (Get FASTA)   NCBI Sequence Viewer  
  AAK26670 (Get FASTA)   NCBI Sequence Viewer  
  EDM14767 (Get FASTA)   NCBI Sequence Viewer  
  EDM14768 (Get FASTA)   NCBI Sequence Viewer  
  EDM14769 (Get FASTA)   NCBI Sequence Viewer  
  EDM14770 (Get FASTA)   NCBI Sequence Viewer  
  Q62655 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_445821   ⟸   NM_053369
- Sequence:
RefSeq Acc Id: ENSRNOP00000070343   ⟸   ENSRNOT00000080844
RefSeq Acc Id: ENSRNOP00000020431   ⟸   ENSRNOT00000020431
RefSeq Acc Id: ENSRNOP00000070021   ⟸   ENSRNOT00000081797
RefSeq Acc Id: XP_038953087   ⟸   XM_039097159
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038953097   ⟸   XM_039097169
- Peptide Label: isoform X9
RefSeq Acc Id: XP_038953109   ⟸   XM_039097181
- Peptide Label: isoform X18
RefSeq Acc Id: XP_038953106   ⟸   XM_039097178
- Peptide Label: isoform X16
RefSeq Acc Id: XP_038953111   ⟸   XM_039097183
- Peptide Label: isoform X20
RefSeq Acc Id: XP_038953096   ⟸   XM_039097168
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038953093   ⟸   XM_039097165
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038953094   ⟸   XM_039097166
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038953091   ⟸   XM_039097163
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038953092   ⟸   XM_039097164
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038953090   ⟸   XM_039097162
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038953095   ⟸   XM_039097167
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038953085   ⟸   XM_039097157
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038953100   ⟸   XM_039097172
- Peptide Label: isoform X11
RefSeq Acc Id: XP_038953099   ⟸   XM_039097171
- Peptide Label: isoform X10
RefSeq Acc Id: XP_038953089   ⟸   XM_039097161
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038953086   ⟸   XM_039097158
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038953098   ⟸   XM_039097170
- Peptide Label: isoform X9
RefSeq Acc Id: XP_038953107   ⟸   XM_039097179
- Peptide Label: isoform X16
RefSeq Acc Id: XP_038953088   ⟸   XM_039097160
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038953105   ⟸   XM_039097177
- Peptide Label: isoform X15
RefSeq Acc Id: XP_038953108   ⟸   XM_039097180
- Peptide Label: isoform X17
RefSeq Acc Id: XP_038953101   ⟸   XM_039097173
- Peptide Label: isoform X12
RefSeq Acc Id: XP_038953102   ⟸   XM_039097174
- Peptide Label: isoform X13
RefSeq Acc Id: XP_038953104   ⟸   XM_039097176
- Peptide Label: isoform X14
RefSeq Acc Id: XP_038953112   ⟸   XM_039097184
- Peptide Label: isoform X21
RefSeq Acc Id: XP_038953113   ⟸   XM_039097185
- Peptide Label: isoform X21
RefSeq Acc Id: XP_038953110   ⟸   XM_039097182
- Peptide Label: isoform X19
RefSeq Acc Id: XP_038953118   ⟸   XM_039097190
- Peptide Label: isoform X26
RefSeq Acc Id: XP_038953115   ⟸   XM_039097187
- Peptide Label: isoform X23
RefSeq Acc Id: XP_038953116   ⟸   XM_039097188
- Peptide Label: isoform X24
RefSeq Acc Id: XP_038953117   ⟸   XM_039097189
- Peptide Label: isoform X25
RefSeq Acc Id: XP_038953114   ⟸   XM_039097186
- Peptide Label: isoform X22
RefSeq Acc Id: XP_038953119   ⟸   XM_039097191
- Peptide Label: isoform X27
Protein Domains
bHLH

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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:69271 AgrOrtholog
Ensembl Genes ENSRNOG00000012405 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000020431 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000070021 UniProtKB/TrEMBL
  ENSRNOP00000070343 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000020431 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000080844 UniProtKB/TrEMBL
  ENSRNOT00000081797 UniProtKB/TrEMBL
Gene3D-CATH 4.10.280.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro bHLH_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HLH_DNA-bd_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:84382 UniProtKB/Swiss-Prot
NCBI Gene 84382 ENTREZGENE
Pfam HLH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Tcf4 PhenoGen
PROSITE BHLH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART HLH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF47459 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC217074
UniProt A0A0G2JWU7_RAT UniProtKB/TrEMBL
  A0A0G2JXN5_RAT UniProtKB/TrEMBL
  F1LQ90_RAT UniProtKB/TrEMBL
  ITF2_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary Q99N33 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Tcf4  transcription factor 4      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_domains contains a basic helix-loop-helix motif 68862