Tbc1d4 (TBC1 domain family, member 4) - Rat Genome Database

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Gene: Tbc1d4 (TBC1 domain family, member 4) Rattus norvegicus
Analyze
Symbol: Tbc1d4
Name: TBC1 domain family, member 4
RGD ID: 1561609
Description: Predicted to enable GTPase activator activity. Involved in cellular response to insulin stimulus and negative regulation of vesicle fusion. Located in vesicle. Human ortholog(s) of this gene implicated in acanthosis nigricans. Orthologous to human TBC1D4 (TBC1 domain family member 4); PARTICIPATES IN altered insulin responsive facilitative sugar transporter mediated glucose transport pathway; insulin responsive facilitative sugar transporter mediated glucose transport pathway; phosphatidylinositol 3-kinase-Akt signaling pathway; INTERACTS WITH (S)-colchicine; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC306117; RGD1561609; similar to TBC1 domain family member 4; similar to TBC1 domain family member 4 (Akt substrate of 160 kDa) (AS160); TBC1 domain family member 4
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Allele / Splice: Tbc1d4em1
Genetic Models: WI-Tbc1d4em1Gdcz
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81584,670,756 - 84,848,876 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1584,670,756 - 84,848,693 (-)EnsemblGRCr8
mRatBN7.21578,256,030 - 78,434,168 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1578,257,121 - 78,434,265 (-)EnsemblmRatBN7.2
Rnor_6.01585,927,978 - 86,105,829 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1585,930,044 - 86,105,273 (-)Ensemblrn6Rnor6.0
Rnor_5.01589,695,614 - 89,871,879 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41585,359,159 - 85,561,229 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1577,452,014 - 77,628,396 (-)NCBICelera
Cytogenetic Map15q21NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-demecolcine  (ISO)
(S)-colchicine  (EXP)
1,2,4-trichloro-5-(2,5-dichlorophenyl)benzene  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
1-chloro-2,4-dinitrobenzene  (ISO)
17beta-estradiol  (EXP)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP)
2,4,4'-trichlorobiphenyl  (ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-azacytidine  (ISO)
6-propyl-2-thiouracil  (EXP)
9-cis-retinoic acid  (EXP)
aflatoxin B1  (EXP,ISO)
Aflatoxin B2 alpha  (ISO)
AICA ribonucleotide  (ISO)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (ISO)
aristolochic acid A  (ISO)
arotinoid acid  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
azoxystrobin  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
Benzo[ghi]perylene  (ISO)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
Butylbenzyl phthalate  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
caffeine  (ISO)
carbon nanotube  (ISO)
chlorpyrifos  (ISO)
ciglitazone  (EXP,ISO)
cisplatin  (ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
coumarin  (ISO)
Cuprizon  (EXP)
cyclosporin A  (ISO)
cytarabine  (ISO)
D-glucose  (ISO)
DDT  (EXP)
Dibutyl phosphate  (ISO)
dioxygen  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
enzyme inhibitor  (ISO)
epoxiconazole  (ISO)
fenvalerate  (EXP)
folic acid  (ISO)
formaldehyde  (ISO)
FR900359  (ISO)
gentamycin  (EXP)
ginsenoside Re  (ISO)
glucose  (ISO)
GSK-J4  (ISO)
hexadecanoic acid  (EXP,ISO)
hydrogen peroxide  (ISO)
L-ascorbic acid  (EXP)
lipopolysaccharide  (ISO)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (ISO)
metformin  (ISO)
methamphetamine  (ISO)
mono(2-ethylhexyl) phthalate  (EXP)
paracetamol  (EXP)
PCB138  (ISO)
perfluorohexanesulfonic acid  (ISO)
pirinixic acid  (ISO)
quercetin  (ISO)
rotenone  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
SB 431542  (ISO)
sodium arsenite  (ISO)
streptozocin  (ISO)
succimer  (ISO)
sunitinib  (ISO)
temozolomide  (ISO)
testosterone  (ISO)
titanium dioxide  (ISO)
topotecan  (ISO)
trichostatin A  (ISO)
triphenyl phosphate  (ISO)
triptonide  (ISO)
troglitazone  (ISO)
valproic acid  (ISO)
vincaleukoblastine  (ISO)
vincristine  (ISO)
vitamin E  (EXP)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IEA)
cytosol  (IBA,IEA,ISO)
Golgi apparatus  (IBA)
vesicle  (IDA)

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. Whole body glucoregulation and tissue-specific glucose uptake in a novel Akt substrate of 160 kDa knockout rat model. Arias EB, etal., PLoS One. 2019 Apr 29;14(4):e0216236. doi: 10.1371/journal.pone.0216236. eCollection 2019.
2. A truncation mutation in TBC1D4 in a family with acanthosis nigricans and postprandial hyperinsulinemia. Dash S, etal., Proc Natl Acad Sci U S A. 2009 Jun 9;106(23):9350-5. doi: 10.1073/pnas.0900909106. Epub 2009 May 22.
3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
4. Rab proteins in endocytosis and Glut4 trafficking. Kaddai V, etal., Acta Physiol (Oxf). 2008 Jan;192(1):75-88.
5. AS160 phosphotyrosine-binding domain constructs inhibit insulin-stimulated GLUT4 vesicle fusion with the plasma membrane. Koumanov F, etal., J Biol Chem. 2011 May 13;286(19):16574-82. doi: 10.1074/jbc.M111.226092. Epub 2011 Mar 17.
6. The GLUT4 code. Larance M, etal., Mol Endocrinol. 2008 Feb;22(2):226-33. Epub 2007 Aug 23.
7. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
8. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
9. GLUT4 translocation: the last 200 nanometers. Watson RT and Pessin JE, Cell Signal. 2007 Nov;19(11):2209-17. Epub 2007 Jun 21.
10. Insulin action on glucose transporters through molecular switches, tracks and tethers. Zaid H, etal., Biochem J. 2008 Jul 15;413(2):201-15.
11. In vivo glucoregulation and tissue-specific glucose uptake in female Akt substrate 160 kDa knockout rats. Zheng X, etal., PLoS One. 2020 Feb 13;15(2):e0223340. doi: 10.1371/journal.pone.0223340. eCollection 2020.
Additional References at PubMed
PMID:18701652   PMID:19249902   PMID:19435856   PMID:19724017   PMID:22908308   PMID:23376485   PMID:27041232   PMID:27482072   PMID:27714805   PMID:31505169   PMID:31573845   PMID:34753801  
PMID:36634338   PMID:37289137   PMID:38656130  


Genomics

Comparative Map Data
Tbc1d4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81584,670,756 - 84,848,876 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1584,670,756 - 84,848,693 (-)EnsemblGRCr8
mRatBN7.21578,256,030 - 78,434,168 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1578,257,121 - 78,434,265 (-)EnsemblmRatBN7.2
Rnor_6.01585,927,978 - 86,105,829 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1585,930,044 - 86,105,273 (-)Ensemblrn6Rnor6.0
Rnor_5.01589,695,614 - 89,871,879 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41585,359,159 - 85,561,229 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1577,452,014 - 77,628,396 (-)NCBICelera
Cytogenetic Map15q21NCBI
TBC1D4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381375,283,503 - 75,482,169 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1375,283,503 - 75,482,651 (-)Ensemblhg38GRCh38
GRCh371375,857,639 - 76,056,305 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361374,756,810 - 74,954,251 (-)NCBIBuild 36Build 36hg18NCBI36
Build 341374,757,253 - 74,954,251NCBI
Celera1356,756,694 - 56,954,119 (-)NCBICelera
Cytogenetic Map13q22.2NCBI
HuRef1356,556,159 - 56,753,666 (-)NCBIHuRef
CHM1_11375,826,535 - 76,023,986 (-)NCBICHM1_1
T2T-CHM13v2.01374,507,182 - 74,705,799 (-)NCBIT2T-CHM13v2.0
Tbc1d4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3914101,679,800 - 101,846,717 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl14101,679,796 - 101,846,627 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm3814101,442,360 - 101,609,281 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl14101,442,360 - 101,609,191 (-)Ensemblmm10GRCm38
MGSCv3714101,841,577 - 102,008,408 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv3614100,325,233 - 100,494,965 (-)NCBIMGSCv36mm8
Celera14100,079,886 - 100,248,354 (-)NCBICelera
Cytogenetic Map14E2.3NCBI
cM Map1450.9NCBI
Tbc1d4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540431,622,102 - 31,691,517 (+)Ensembl
ChiLan1.0NW_00495540431,516,727 - 31,691,414 (+)NCBIChiLan1.0ChiLan1.0
TBC1D4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21476,864,486 - 77,058,341 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11375,457,938 - 75,656,273 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01356,513,065 - 56,706,491 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11375,282,441 - 75,480,138 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1375,282,441 - 75,361,729 (-)EnsemblpanPan2panpan1.1
TBC1D4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12229,109,079 - 29,175,357 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2229,110,201 - 29,290,154 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2228,971,148 - 29,151,992 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02229,444,745 - 29,625,974 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2229,445,331 - 29,625,959 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12229,095,512 - 29,277,006 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02229,139,459 - 29,320,685 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02229,208,132 - 29,388,931 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Tbc1d4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945130,255,477 - 130,441,705 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365115,673,368 - 5,856,631 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365115,789,683 - 5,858,930 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TBC1D4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1147,543,815 - 47,828,208 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11147,543,808 - 47,760,928 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21152,161,139 - 52,187,164 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TBC1D4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1354,384,597 - 54,588,842 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl354,386,342 - 54,464,531 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604610,524,400 - 10,732,251 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tbc1d4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475124,999,386 - 25,181,702 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462475124,999,301 - 25,183,905 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Tbc1d4
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11222,978,594 - 23,166,155 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Tbc1d4
1320 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:298
Count of miRNA genes:180
Interacting mature miRNAs:204
Transcripts:ENSRNOT00000012600, ENSRNOT00000064942, ENSRNOT00000073961
Prediction methods:Microtar, 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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1549844Bss7Bone structure and strength QTL 76.4femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1582194914108192169Rat
2300326Plaw1Placental weight QTL 1150.005placenta mass (VT:0004257)placenta wet weight (CMO:0002088)1574735564106469153Rat
1358354Srcrt5Stress Responsive Cort QTL 53.38blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1582503470108192169Rat
70155Gcs1Gastric cancer susceptibility QTL13.8stomach morphology trait (VT:0000470)stomach tumor susceptibility score (CMO:0002043)1582714037106778197Rat
1582227Gluco30Glucose level QTL 303.60.0003blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)154367724488677244Rat
1582228Epfw3Epididymal fat weight QTL 34.10.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)154367724488677244Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)1525285835104695021Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)1525285835104695021Rat
7411646Foco21Food consumption QTL 2123.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)1584278281108192169Rat
631516Gluco31Glucose level QTL 317blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1572716871101425383Rat
2298549Neuinf12Neuroinflammation QTL 123.5nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)1561710951106710951Rat
1331724Bp223Blood pressure QTL 2233.53715arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1575928947101425383Rat
2317050Aia24Adjuvant induced arthritis QTL 242.06joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)1559257087104257087Rat
2313080Bss65Bone structure and strength QTL 653.90.0001long bone metaphysis morphology trait (VT:0000133)tibia midshaft total cross-sectional area (CMO:0001715)1567399137108192169Rat
2317055Aia10Adjuvant induced arthritis QTL 103.41joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)1582194914108192169Rat
1582214Stl21Serum triglyceride level QTL 213.10.022blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)154367724488677244Rat
1576315Schws6Schwannoma susceptibility QTL 60.0069nervous system integrity trait (VT:0010566)post-insult time of death (CMO:0002005)1560213984105213984Rat
1300144Rf23Renal function QTL 233.61renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)1544806773104695021Rat
61477Aia4Adjuvant induced arthritis QTL 43joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)156244089297773284Rat
70182BpQTLcluster12Blood pressure QTL cluster 123.53arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)1572716871101425383Rat
152025253Hrtrt24Heart rate QTL 243.82heart pumping trait (VT:2000009)153185580392671517Rat
1581555Eae19Experimental allergic encephalomyelitis QTL 194.7nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)158271393186775589Rat
631655Bp126Blood pressure QTL 1264arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1564571127108192169Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151915576287086765Rat
1598828Glom14Glomerulus QTL 142.5kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)154046315285463152Rat
1641889Colcr6Colorectal carcinoma resistance QTL 62.90.0126intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)1583700787108192169Rat
1582242Gluco28Glucose level QTL 283.30.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)154367724488677244Rat
1582244Bw79Body weight QTL 7940.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)154367724488677244Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)1525285835104695021Rat

Markers in Region
D15Rat71  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr81584,744,662 - 84,744,859 (+)Marker Load Pipeline
mRatBN7.21578,329,942 - 78,330,139 (+)MAPPERmRatBN7.2
Rnor_6.01586,001,834 - 86,002,030NCBIRnor6.0
Rnor_5.01589,768,256 - 89,768,452UniSTSRnor5.0
RGSC_v3.41585,456,315 - 85,456,512RGDRGSC3.4
RGSC_v3.41585,456,316 - 85,456,512UniSTSRGSC3.4
Celera1577,523,991 - 77,524,187UniSTS
RGSC_v3.11585,472,096 - 85,472,292RGD
RH 3.4 Map15541.3RGD
RH 3.4 Map15541.3UniSTS
RH 2.0 Map15419.4RGD
SHRSP x BN Map1550.5798RGD
FHH x ACI Map1563.69RGD
Cytogenetic Map15q21UniSTS
D15Got221  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr81584,744,742 - 84,744,913 (+)Marker Load Pipeline
mRatBN7.21578,330,022 - 78,330,193 (+)MAPPERmRatBN7.2
Rnor_6.01586,001,914 - 86,002,084NCBIRnor6.0
Rnor_5.01589,768,336 - 89,768,506UniSTSRnor5.0
RGSC_v3.41585,456,396 - 85,456,566UniSTSRGSC3.4
Celera1577,524,071 - 77,524,241UniSTS
Cytogenetic Map15q21UniSTS
TBC1D4  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21578,264,296 - 78,264,433 (+)MAPPERmRatBN7.2
Rnor_6.01585,936,244 - 85,936,380NCBIRnor6.0
Rnor_5.01589,703,880 - 89,704,016UniSTSRnor5.0
RGSC_v3.41585,365,533 - 85,365,669UniSTSRGSC3.4
Celera1577,460,281 - 77,460,417UniSTS
Cytogenetic Map15q21UniSTS


Genetic Models
This gene Tbc1d4 is modified in the following models/strains:
WI-Tbc1d4em1Gdcz    


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000012600   ⟹   ENSRNOP00000012600
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1584,670,756 - 84,848,693 (-)Ensembl
mRatBN7.2 Ensembl1578,257,121 - 78,434,265 (-)Ensembl
Rnor_6.0 Ensembl1585,930,044 - 86,105,273 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000064942   ⟹   ENSRNOP00000062670
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1584,670,756 - 84,848,693 (-)Ensembl
mRatBN7.2 Ensembl1578,257,121 - 78,434,265 (-)Ensembl
Rnor_6.0 Ensembl1585,930,044 - 86,105,273 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000109400   ⟹   ENSRNOP00000089194
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1584,670,756 - 84,848,693 (-)Ensembl
mRatBN7.2 Ensembl1578,257,121 - 78,434,265 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000120033   ⟹   ENSRNOP00000096754
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1584,670,756 - 84,848,693 (-)Ensembl
mRatBN7.2 Ensembl1578,257,121 - 78,434,265 (-)Ensembl
RefSeq Acc Id: NM_001427219   ⟹   NP_001414148
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81584,670,756 - 84,848,693 (-)NCBI
RefSeq Acc Id: XM_039093969   ⟹   XP_038949897
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81584,670,761 - 84,848,876 (-)NCBI
mRatBN7.21578,256,030 - 78,434,168 (-)NCBI
RefSeq Acc Id: XM_039093970   ⟹   XP_038949898
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81584,670,761 - 84,848,860 (-)NCBI
mRatBN7.21578,256,030 - 78,434,166 (-)NCBI
RefSeq Acc Id: XM_039093971   ⟹   XP_038949899
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81584,670,761 - 84,742,348 (-)NCBI
mRatBN7.21578,256,030 - 78,327,627 (-)NCBI
Ensembl Acc Id: ENSRNOP00000012600   ⟸   ENSRNOT00000012600
Ensembl Acc Id: ENSRNOP00000062670   ⟸   ENSRNOT00000064942
RefSeq Acc Id: XP_038949897   ⟸   XM_039093969
- Peptide Label: isoform X1
- UniProtKB: A0A8I6ABF1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038949898   ⟸   XM_039093970
- Peptide Label: isoform X2
- UniProtKB: D3Z881 (UniProtKB/TrEMBL),   A0A8I6ABF1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038949899   ⟸   XM_039093971
- Peptide Label: isoform X3
- UniProtKB: A6HU71 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000096754   ⟸   ENSRNOT00000120033
Ensembl Acc Id: ENSRNOP00000089194   ⟸   ENSRNOT00000109400
RefSeq Acc Id: NP_001414148   ⟸   NM_001427219
- UniProtKB: A0A8I6AT49 (UniProtKB/TrEMBL),   D3ZGN0 (UniProtKB/TrEMBL)
Protein Domains
PID   Rab-GAP TBC

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZGN0-F1-model_v2 AlphaFold D3ZGN0 1-1309 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1561609 AgrOrtholog
BioCyc Gene G2FUF-12753 BioCyc
Ensembl Genes ENSRNOG00000009431 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000012600.10 UniProtKB/TrEMBL
  ENSRNOT00000064942 ENTREZGENE
  ENSRNOT00000064942.6 UniProtKB/TrEMBL
  ENSRNOT00000109400 ENTREZGENE
  ENSRNOT00000109400.2 UniProtKB/TrEMBL
  ENSRNOT00000120033 ENTREZGENE
  ENSRNOT00000120033.2 UniProtKB/TrEMBL
Gene3D-CATH 1.10.10.2750 UniProtKB/TrEMBL
  2.30.29.30 UniProtKB/TrEMBL
  putative rabgap domain of human tbc1 domain family member 14 like domains UniProtKB/TrEMBL
  Ypt/Rab-GAP domain of gyp1p, domain 3 UniProtKB/TrEMBL
InterPro DUF3350 UniProtKB/TrEMBL
  PH_like_dom UniProtKB/TrEMBL
  PTyr_interaction_dom UniProtKB/TrEMBL
  Rab-GTPase-TBC_dom UniProtKB/TrEMBL
  Rab-GTPase_TBC_sf UniProtKB/TrEMBL
  Rab_GAP_TBC_domain UniProtKB/TrEMBL
NCBI Gene 306117 ENTREZGENE
PANTHER RAB GTPASE-ACTIVATING PROTEIN 1-LIKE UniProtKB/TrEMBL
  TBC1 DOMAIN FAMILY MEMBER 4 UniProtKB/TrEMBL
Pfam DUF3350 UniProtKB/TrEMBL
  PID UniProtKB/TrEMBL
  RabGAP-TBC UniProtKB/TrEMBL
  RabGap-TBC_2 UniProtKB/TrEMBL
PhenoGen Tbc1d4 PhenoGen
PROSITE PID UniProtKB/TrEMBL
  TBC_RABGAP UniProtKB/TrEMBL
RatGTEx ENSRNOG00000009431 RatGTEx
SMART PTB UniProtKB/TrEMBL
  TBC UniProtKB/TrEMBL
Superfamily-SCOP PH domain-like UniProtKB/TrEMBL
  RabGAP_TBC UniProtKB/TrEMBL
UniProt A0A8I6ABF1 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6AT49 ENTREZGENE, UniProtKB/TrEMBL
  A6HU71 ENTREZGENE, UniProtKB/TrEMBL
  D3Z881 ENTREZGENE, UniProtKB/TrEMBL
  D3ZGN0 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-08-06 Tbc1d4  TBC1 domain family, member 4  RGD1561609  similar to TBC1 domain family member 4  Name and Symbol changed 629549 APPROVED
2013-05-24 RGD1561609  similar to TBC1 domain family member 4  LOC686547  similar to TBC1 domain family member 4 (Akt substrate of 160 kDa) (AS160)  Data merged from RGD:1596351 1643240 APPROVED
2008-04-30 RGD1561609  similar to TBC1 domain family member 4   RGD1561609_predicted  similar to TBC1 domain family member 4 (predicted)  'predicted' is removed 2292626 APPROVED
2006-11-20 LOC686547  similar to TBC1 domain family member 4 (Akt substrate of 160 kDa) (AS160)      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-03-07 RGD1561609_predicted  similar to TBC1 domain family member 4 (predicted)  LOC306117  similar to TBC1 domain family member 4  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC306117  similar to TBC1 domain family member 4      Symbol and Name status set to provisional 70820 PROVISIONAL