Tbc1d30 (TBC1 domain family, member 30) - Rat Genome Database

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Gene: Tbc1d30 (TBC1 domain family, member 30) Rattus norvegicus
Analyze
Symbol: Tbc1d30
Name: TBC1 domain family, member 30
RGD ID: 1305255
Description: Predicted to enable GTPase activator activity and small GTPase binding activity. Predicted to be involved in negative regulation of cilium assembly. Predicted to be located in ciliary basal body. Orthologous to human TBC1D30 (TBC1 domain family member 30); INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine; amphetamine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC102548194; LOC299824; RGD1305255; similar to CG3996-PA; TBC1 domain family member 30; TBC1 domain family member 30-like; uncharacterized protein LOC102548194
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8758,665,054 - 58,754,427 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl758,665,054 - 58,754,614 (-)EnsemblGRCr8
mRatBN7.2756,779,570 - 56,869,092 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl756,782,165 - 56,870,515 (-)EnsemblmRatBN7.2
Rnor_6.0763,361,443 - 63,409,760 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl763,361,696 - 63,407,241 (-)Ensemblrn6Rnor6.0
Rnor_5.0763,585,333 - 63,631,367 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4760,564,501 - 60,611,576 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera753,527,915 - 53,576,165 (-)NCBICelera
RGSC_v3.1760,585,483 - 60,653,319 (-)NCBI
Cytogenetic Map7q22NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
ciliary basal body  (IEA,ISO)
cilium  (IEA,ISO)
plasma membrane  (IEA,ISO)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. 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.
2. GOA pipeline RGD automated data pipeline
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:17646400   PMID:25931508  


Genomics

Comparative Map Data
Tbc1d30
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8758,665,054 - 58,754,427 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl758,665,054 - 58,754,614 (-)EnsemblGRCr8
mRatBN7.2756,779,570 - 56,869,092 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl756,782,165 - 56,870,515 (-)EnsemblmRatBN7.2
Rnor_6.0763,361,443 - 63,409,760 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl763,361,696 - 63,407,241 (-)Ensemblrn6Rnor6.0
Rnor_5.0763,585,333 - 63,631,367 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4760,564,501 - 60,611,576 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera753,527,915 - 53,576,165 (-)NCBICelera
RGSC_v3.1760,585,483 - 60,653,319 (-)NCBI
Cytogenetic Map7q22NCBI
TBC1D30
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381264,759,484 - 64,881,033 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1264,759,484 - 64,881,033 (+)Ensemblhg38GRCh38
GRCh371265,153,264 - 65,274,813 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361263,460,856 - 63,561,079 (+)NCBIBuild 36Build 36hg18NCBI36
Celera1264,839,404 - 64,937,879 (+)NCBICelera
Cytogenetic Map12q14.3NCBI
HuRef1262,269,165 - 62,325,612 (+)NCBIHuRef
CHM1_11265,185,470 - 65,241,929 (+)NCBICHM1_1
T2T-CHM13v2.01264,738,311 - 64,860,047 (+)NCBIT2T-CHM13v2.0
Tbc1d30
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3910121,099,724 - 121,187,549 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl10121,099,725 - 121,187,183 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm3810121,263,819 - 121,351,644 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl10121,263,820 - 121,351,278 (-)Ensemblmm10GRCm38
MGSCv3710120,700,875 - 120,748,245 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv3610120,666,479 - 120,718,932 (-)NCBIMGSCv36mm8
Celera10123,627,218 - 123,683,449 (-)NCBICelera
Cytogenetic Map10D2NCBI
Tbc1d30
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545811,530,920 - 11,617,765 (+)Ensembl
ChiLan1.0NW_00495545811,531,066 - 11,617,765 (+)NCBIChiLan1.0ChiLan1.0
TBC1D30
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21029,490,225 - 29,609,529 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11229,486,991 - 29,606,300 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01224,042,551 - 24,164,052 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11224,546,158 - 24,646,299 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1224,551,186 - 24,645,916 (-)EnsemblpanPan2panpan1.1
TBC1D30
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1107,435,353 - 7,514,411 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl107,430,381 - 7,512,705 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha107,370,949 - 7,450,012 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0107,546,022 - 7,625,360 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl107,539,959 - 7,625,359 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1107,411,038 - 7,490,082 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0107,663,625 - 7,742,741 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0107,794,211 - 7,873,289 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Tbc1d30
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494550,992,374 - 51,079,423 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365453,074,561 - 3,117,918 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365453,075,135 - 3,117,750 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TBC1D30
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl529,248,091 - 29,298,407 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1529,206,134 - 29,298,401 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2532,235,370 - 32,291,607 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TBC1D30
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11160,456,397 - 60,564,293 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1160,516,158 - 60,564,477 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_023666037185,208,104 - 185,319,887 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tbc1d30
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248023,531,961 - 3,579,864 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046248023,533,703 - 3,623,349 (-)NCBIHetGla 1.0HetGla 1.0hetGla2

Variants

.
Variants in Tbc1d30
216 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:89
Count of miRNA genes:81
Interacting mature miRNAs:84
Transcripts:ENSRNOT00000024679
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
7411569Bw137Body weight QTL 1370.001body mass (VT:0001259)body weight gain (CMO:0000420)72380760668807606Rat
10053722Scort27Serum corticosterone level QTL 272.410.0083blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)74511390390113903Rat
1578652Bmd15Bone mineral density QTL 155.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)71051708662346019Rat
1549840Bss5Bone structure and strength QTL 59.8femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)72663805771638057Rat
1300127Srn1Serum renin concentration QTL 13.87blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)72417947886817926Rat
10059605Kidm47Kidney mass QTL 472.910.05kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)74913799967614020Rat
1357336Gluco6Glucose level QTL 63.4blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)75170064396700643Rat
1358361Sradr5Stress Responsive Adrenal Weight QTL 55.55adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)731770293110435881Rat
1298525Cm1Cardiac mass QTL 12.7heart mass (VT:0007028)heart wet weight (CMO:0000069)756625161101625161Rat
2298547Neuinf5Neuroinflammation QTL 53.7nervous system integrity trait (VT:0010566)spinal cord Cd74 protein level (CMO:0002131)71011291660150541Rat
631513Scl7Serum cholesterol level QTL 74.1blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)73984590284845902Rat
10755453Coatc12Coat color QTL 120coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)73299870277998702Rat
631504Cm27Cardiac mass QTL 273.45heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)746307490127866166Rat
2317059Aia15Adjuvant induced arthritis QTL 152.46joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)74968283263890004Rat
7411605Foco14Food consumption QTL 1424.10.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)73617876481178764Rat
1300151Bp181Blood pressure QTL 1813.36arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)755498584105834451Rat
1643004Pain2Pain QTL 21mechanical nociception trait (VT:0002734)self mutilation severity score (CMO:0002145)71011291699900612Rat
738030Anxrr8Anxiety related response QTL 84.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)74847504993475049Rat
1300149Cm6Cardiac mass QTL 64.09heart mass (VT:0007028)heart left ventricle weight to body weight ratio (CMO:0000530)71104117804Rat
631534Lnnr1Liver neoplastic nodule remodeling QTL 13.850.001liver integrity trait (VT:0010547)liver remodeling tumorous lesion number to liver total tumorous lesion number ratio (CMO:0001705)73617876481178764Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)71509236116977875Rat
61357Bp38Blood pressure QTL 381.60.052arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)740540077123682549Rat
2303629Vencon3Ventilatory control QTL 37.25respiration trait (VT:0001943)respiration rate (CMO:0000289)74299622658678836Rat
70190Mcs6Mammary carcinoma susceptibility QTL 62.29mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)72862457565788017Rat
2316947Rf58Renal function QTL 587.8kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)749682832115766396Rat
1300132Bp182Blood pressure QTL 1823.49arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)72154197786817926Rat
2316955Stl24Serum triglyceride level QTL 247.1blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)749682832115766396Rat
738033Anxrr6Anxiety related response QTL 64.1exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)71746044762460447Rat
2316952Pur22Proteinuria QTL 225.2urine protein amount (VT:0005160)urine protein level (CMO:0000591)749682832115766396Rat
2303582Gluco53Glucose level QTL 533blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)74860308793603087Rat
70207Niddm31Non-insulin dependent diabetes mellitus QTL 313.9blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)72005723265057232Rat
61439Cia8Collagen induced arthritis QTL 85.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)72718291472182914Rat

Markers in Region
D7Rat25  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8758,678,692 - 58,678,836 (+)Marker Load Pipeline
mRatBN7.2756,793,210 - 56,793,354 (+)MAPPERmRatBN7.2
Rnor_6.0763,372,611 - 63,372,754NCBIRnor6.0
Rnor_5.0763,596,501 - 63,596,644UniSTSRnor5.0
RGSC_v3.4760,576,516 - 60,576,660RGDRGSC3.4
RGSC_v3.4760,576,517 - 60,576,660UniSTSRGSC3.4
Celera753,538,981 - 53,539,124UniSTS
RGSC_v3.1760,597,247 - 60,597,390RGD
RH 3.4 Map7494.5RGD
RH 3.4 Map7494.5UniSTS
RH 2.0 Map7423.6RGD
SHRSP x BN Map736.71RGD
FHH x ACI Map733.46RGD
Cytogenetic Map7q22UniSTS


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 67 163 91 90 59 90 59 6 354 190 11 142 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000024679   ⟹   ENSRNOP00000024679
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl758,666,776 - 58,754,614 (-)Ensembl
mRatBN7.2 Ensembl756,782,165 - 56,828,688 (-)Ensembl
Rnor_6.0 Ensembl763,361,696 - 63,407,241 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000109956   ⟹   ENSRNOP00000085322
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl758,665,054 - 58,754,614 (-)Ensembl
mRatBN7.2 Ensembl756,782,165 - 56,870,515 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000133108   ⟹   ENSRNOP00000100242
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl758,665,054 - 58,713,934 (-)Ensembl
RefSeq Acc Id: NM_001427595   ⟹   NP_001414524
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8758,665,054 - 58,713,934 (-)NCBI
RefSeq Acc Id: XM_039080139   ⟹   XP_038936067
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8758,665,054 - 58,754,427 (-)NCBI
mRatBN7.2756,779,570 - 56,869,092 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001414524 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936067 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM16553 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000024679.8
  ENSRNOP00000085322
  ENSRNOP00000085322.1
  ENSRNOP00000100242
  ENSRNOP00000100242.1
Ensembl Acc Id: ENSRNOP00000024679   ⟸   ENSRNOT00000024679
RefSeq Acc Id: XP_038936067   ⟸   XM_039080139
- Peptide Label: isoform X1
- UniProtKB: A0A8I5ZYZ5 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000085322   ⟸   ENSRNOT00000109956
RefSeq Acc Id: NP_001414524   ⟸   NM_001427595
- UniProtKB: D3ZG06 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000100242   ⟸   ENSRNOT00000133108
Protein Domains
Rab-GAP TBC

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZG06-F1-model_v2 AlphaFold D3ZG06 1-758 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:1305255 AgrOrtholog
BioCyc Gene G2FUF-33877 BioCyc
Ensembl Genes ENSRNOG00000023951 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000024679.8 UniProtKB/TrEMBL
  ENSRNOT00000109956 ENTREZGENE
  ENSRNOT00000109956.2 UniProtKB/TrEMBL
  ENSRNOT00000133108 ENTREZGENE
  ENSRNOT00000133108.1 UniProtKB/TrEMBL
Gene3D-CATH 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 Rab-GTPase_TBC_sf UniProtKB/TrEMBL
  RabGAP_TBC UniProtKB/TrEMBL
  Tbc1d30_C UniProtKB/TrEMBL
NCBI Gene 299824 ENTREZGENE
PANTHER TBC1 DOMAIN FAMILY MEMBER 30 UniProtKB/TrEMBL
  TRANSLOCON-ASSOCIATED PROTEIN TRAP , GAMMA SUBUNIT UniProtKB/TrEMBL
Pfam DUF4682 UniProtKB/TrEMBL
  TBC UniProtKB/TrEMBL
PhenoGen Tbc1d30 PhenoGen
PROSITE TBC_RABGAP UniProtKB/TrEMBL
RatGTEx ENSRNOG00000023951 RatGTEx
SMART TBC UniProtKB/TrEMBL
Superfamily-SCOP RabGAP_TBC UniProtKB/TrEMBL
UniProt A0A8I5ZYZ5 ENTREZGENE, UniProtKB/TrEMBL
  A0ABK0L6L6_RAT UniProtKB/TrEMBL
  D3ZG06 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Tbc1d30  TBC1 domain family, member 30  LOC102548194  TBC1 domain family member 30-like  Data merged from RGD:7713425 737654 PROVISIONAL
2013-12-18 LOC102548194  TBC1 domain family member 30-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-03-06 Tbc1d30  TBC1 domain family, member 30  RGD1305255_predicted  similar to CG3996-PA (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 RGD1305255_predicted  similar to CG3996-PA (predicted)  LOC299824_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC299824_predicted  similar to CG3996-PA (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL