Tbc1d19 (TBC1 domain family, member 19) - Rat Genome Database

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Gene: Tbc1d19 (TBC1 domain family, member 19) Rattus norvegicus
Analyze
Symbol: Tbc1d19
Name: TBC1 domain family, member 19
RGD ID: 1304958
Description: Orthologous to human TBC1D19 (TBC1 domain family member 19); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,6-dinitrotoluene; acetamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC289657; RGD1304958; similar to RIKEN cDNA 2810453K03; TBC1 domain family member 19
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81461,297,193 - 61,413,106 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1461,296,800 - 61,413,028 (-)EnsemblGRCr8
mRatBN7.21457,084,305 - 57,200,221 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1457,084,311 - 57,200,202 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1461,492,325 - 61,607,366 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01462,794,750 - 62,909,641 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01459,191,540 - 59,306,434 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01459,403,930 - 59,516,854 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1459,403,865 - 59,516,911 (-)Ensemblrn6Rnor6.0
Rnor_5.01459,531,481 - 59,644,982 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41461,840,251 - 61,958,275 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1456,193,955 - 56,308,290 (-)NCBICelera
RGSC_v3.11461,842,272 - 61,960,702 (-)NCBI
Cytogenetic Map14q11NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:17646400  


Genomics

Comparative Map Data
Tbc1d19
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81461,297,193 - 61,413,106 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1461,296,800 - 61,413,028 (-)EnsemblGRCr8
mRatBN7.21457,084,305 - 57,200,221 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1457,084,311 - 57,200,202 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1461,492,325 - 61,607,366 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01462,794,750 - 62,909,641 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01459,191,540 - 59,306,434 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01459,403,930 - 59,516,854 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1459,403,865 - 59,516,911 (-)Ensemblrn6Rnor6.0
Rnor_5.01459,531,481 - 59,644,982 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41461,840,251 - 61,958,275 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1456,193,955 - 56,308,290 (-)NCBICelera
RGSC_v3.11461,842,272 - 61,960,702 (-)NCBI
Cytogenetic Map14q11NCBI
TBC1D19
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38426,576,677 - 26,858,919 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl426,576,437 - 26,756,223 (+)Ensemblhg38GRCh38
GRCh37426,585,706 - 26,757,845 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36426,194,644 - 26,366,015 (+)NCBIBuild 36Build 36hg18NCBI36
Build 34426,261,974 - 26,433,071NCBI
Celera427,036,071 - 27,206,887 (+)NCBICelera
Cytogenetic Map4p15.2NCBI
HuRef425,923,603 - 26,094,827 (+)NCBIHuRef
CHM1_1426,586,692 - 26,758,457 (+)NCBICHM1_1
T2T-CHM13v2.0426,561,574 - 26,844,031 (+)NCBIT2T-CHM13v2.0
Tbc1d19
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39553,966,885 - 54,066,563 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl553,966,948 - 54,061,307 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38553,809,543 - 53,909,221 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl553,809,606 - 53,903,965 (+)Ensemblmm10GRCm38
MGSCv37554,200,866 - 54,295,619 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36554,097,927 - 54,191,973 (+)NCBIMGSCv36mm8
Celera551,192,718 - 51,287,697 (+)NCBICelera
Cytogenetic Map5C1NCBI
cM Map529.65NCBI
Tbc1d19
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544318,522,167 - 18,645,848 (-)Ensembl
ChiLan1.0NW_00495544318,522,167 - 18,645,849 (-)NCBIChiLan1.0ChiLan1.0
TBC1D19
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2326,835,641 - 27,030,872 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1427,028,023 - 27,213,464 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0420,983,681 - 21,160,453 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1426,259,516 - 26,432,983 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl426,312,728 - 26,432,983 (+)EnsemblpanPan2panpan1.1
TBC1D19
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1383,793,559 - 83,907,078 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl383,793,781 - 83,936,032 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha386,306,120 - 86,447,814 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0384,755,996 - 84,903,551 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl384,760,364 - 84,904,060 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1383,879,919 - 84,027,289 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0383,999,897 - 84,147,155 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0384,380,566 - 84,499,788 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Tbc1d19
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440528549,383,234 - 49,525,034 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364773,090,308 - 3,226,857 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049364773,090,458 - 3,226,878 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TBC1D19
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl820,254,765 - 20,370,212 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1820,254,783 - 20,369,924 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2820,629,682 - 20,747,741 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TBC1D19
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12723,605,236 - 23,761,799 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2723,605,588 - 23,761,285 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604770,112,695 - 70,272,069 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tbc1d19
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247555,869,440 - 5,985,443 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247555,868,620 - 5,985,390 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Tbc1d19
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11152,236,245 - 52,354,724 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Tbc1d19
444 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:56
Count of miRNA genes:51
Interacting mature miRNAs:52
Transcripts:ENSRNOT00000004030
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
2313089Bss81Bone structure and strength QTL 813.40.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)143802371083023710Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1459848686104848686Rat
70214Niddm28Non-insulin dependent diabetes mellitus QTL 284.06blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)143900944484009444Rat
1300154Bp189Blood pressure QTL 1893.04arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)143123808072970315Rat
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143067446985041098Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1433424686102238540Rat
2313100Bss82Bone structure and strength QTL 8230.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143802371083023710Rat
7387267Uae42Urinary albumin excretion QTL 420.61urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)142252151767521517Rat
2317879Alcrsp27Alcohol response QTL 273.30.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1460854936105854936Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1411334716100078267Rat
2313397Coatc1Coat color QTL1coat/hair pigmentation trait (VT:0010463)coat/hair color measurement (CMO:0001808)141889519263895192Rat
9589034Epfw11Epididymal fat weight QTL 1160.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1459848686104848686Rat
2313048Bss84Bone structure and strength QTL 843.10.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)143802371083023710Rat
1300136Rf22Renal function QTL 223.9renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)144261625899224555Rat
738037Hcas6Hepatocarcinoma susceptibility QTL 62.93liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)143941117087582095Rat
2313084Bss83Bone structure and strength QTL 832.90.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)143802371083023710Rat

Markers in Region
24.MMHAP56FRH9.seq  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21457,177,807 - 57,177,965 (+)MAPPERmRatBN7.2
Rnor_6.01459,494,533 - 59,494,690NCBIRnor6.0
Rnor_5.01459,622,747 - 59,622,904UniSTSRnor5.0
RGSC_v3.41461,934,412 - 61,934,569UniSTSRGSC3.4
Celera1456,285,892 - 56,286,049UniSTS
Cytogenetic Map14q11UniSTS


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 87 59 6 351 187 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000004030   ⟹   ENSRNOP00000004030
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1461,298,208 - 61,413,028 (-)Ensembl
mRatBN7.2 Ensembl1457,085,323 - 57,200,145 (-)Ensembl
Rnor_6.0 Ensembl1459,403,865 - 59,516,911 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000108180   ⟹   ENSRNOP00000081767
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1461,298,208 - 61,413,028 (-)Ensembl
mRatBN7.2 Ensembl1457,084,311 - 57,200,202 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000114945   ⟹   ENSRNOP00000089905
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1461,296,800 - 61,413,028 (-)Ensembl
mRatBN7.2 Ensembl1457,084,311 - 57,200,202 (-)Ensembl
RefSeq Acc Id: NM_001106008   ⟹   NP_001099478
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81461,298,206 - 61,413,028 (-)NCBI
mRatBN7.21457,085,321 - 57,200,145 (-)NCBI
Rnor_6.01459,403,930 - 59,516,854 (-)NCBI
Rnor_5.01459,531,481 - 59,644,982 (-)NCBI
RGSC_v3.41461,840,251 - 61,958,275 (-)RGD
Celera1456,193,955 - 56,308,290 (-)RGD
Sequence:
RefSeq Acc Id: XM_063272928   ⟹   XP_063128998
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81461,297,193 - 61,413,104 (-)NCBI
RefSeq Acc Id: XM_063272929   ⟹   XP_063128999
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81461,319,696 - 61,413,106 (-)NCBI
RefSeq Acc Id: XM_063272930   ⟹   XP_063129000
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81461,325,225 - 61,413,104 (-)NCBI
RefSeq Acc Id: XM_063272931   ⟹   XP_063129001
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81461,309,047 - 61,413,104 (-)NCBI
RefSeq Acc Id: NP_001099478   ⟸   NM_001106008
- UniProtKB: B2GV89 (UniProtKB/TrEMBL),   A6IJF4 (UniProtKB/TrEMBL),   A0A8I5ZTK9 (UniProtKB/TrEMBL),   F7FJU7 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000004030   ⟸   ENSRNOT00000004030
Ensembl Acc Id: ENSRNOP00000081767   ⟸   ENSRNOT00000108180
Ensembl Acc Id: ENSRNOP00000089905   ⟸   ENSRNOT00000114945
RefSeq Acc Id: XP_063128998   ⟸   XM_063272928
- Peptide Label: isoform X1
- UniProtKB: A0A8I5ZTK9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063129001   ⟸   XM_063272931
- Peptide Label: isoform X4
RefSeq Acc Id: XP_063128999   ⟸   XM_063272929
- Peptide Label: isoform X2
RefSeq Acc Id: XP_063129000   ⟸   XM_063272930
- Peptide Label: isoform X3
Protein Domains
Rab-GAP TBC

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B2GV89-F1-model_v2 AlphaFold B2GV89 1-526 view protein structure

Transcriptome

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

Promoters
RGD ID:13699327
Promoter ID:EPDNEW_R9852
Type:multiple initiation site
Name:Tbc1d19_1
Description:TBC1 domain family, member 19
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01459,516,874 - 59,516,934EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1304958 AgrOrtholog
BioCyc Gene G2FUF-15621 BioCyc
Ensembl Genes ENSRNOG00000003003 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000004030 ENTREZGENE
  ENSRNOT00000004030.8 UniProtKB/TrEMBL
  ENSRNOT00000108180 ENTREZGENE
  ENSRNOT00000108180.2 UniProtKB/TrEMBL
  ENSRNOT00000114945.2 UniProtKB/TrEMBL
Gene3D-CATH Ypt/Rab-GAP domain of gyp1p, domain 3 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7321142 IMAGE-MGC_LOAD
InterPro Rab-GTPase_TBC_sf UniProtKB/TrEMBL
  RabGAP_TBC UniProtKB/TrEMBL
  TBC1D19 UniProtKB/TrEMBL
KEGG Report rno:289657 UniProtKB/TrEMBL
MGC_CLONE MGC:188211 IMAGE-MGC_LOAD
NCBI Gene 289657 ENTREZGENE
PANTHER PTHR16110 UniProtKB/TrEMBL
  TBC1 DOMAIN FAMILY MEMBER 19 UniProtKB/TrEMBL
Pfam TBC UniProtKB/TrEMBL
PhenoGen Tbc1d19 PhenoGen
PROSITE TBC_RABGAP UniProtKB/TrEMBL
RatGTEx ENSRNOG00000003003 RatGTEx
SMART TBC UniProtKB/TrEMBL
Superfamily-SCOP RabGAP_TBC UniProtKB/TrEMBL
UniProt A0A8I5ZTK9 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6ACT6_RAT UniProtKB/TrEMBL
  A6IJF4 ENTREZGENE, UniProtKB/TrEMBL
  B2GV89 ENTREZGENE
  F7FJU7 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary B2GV89 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Tbc1d19  TBC1 domain family, member 19   Tbc1d19_predicted  TBC1 domain family, member 19 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-30 Tbc1d19_predicted  TBC1 domain family, member 19 (predicted)  RGD1304958_predicted  similar to RIKEN cDNA 2810453K03 (predicted)  Symbol and Name updated 1299863 APPROVED
2005-01-20 RGD1304958_predicted  similar to RIKEN cDNA 2810453K03 (predicted)  LOC289657_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC289657_predicted  similar to RIKEN cDNA 2810453K03 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL