Trappc10 (trafficking protein particle complex subunit 10) - Rat Genome Database

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Gene: Trappc10 (trafficking protein particle complex subunit 10) Rattus norvegicus
Analyze
Symbol: Trappc10
Name: trafficking protein particle complex subunit 10
RGD ID: 1311263
Description: Predicted to be involved in early endosome to Golgi transport and intra-Golgi vesicle-mediated transport. Predicted to be located in Golgi apparatus and cytosol. Predicted to be part of TRAPPII protein complex. Orthologous to human TRAPPC10 (trafficking protein particle complex subunit 10); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2-nitrofluorene; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC309678; Tmem1; trafficking protein particle complex 10; transmembrane protein 1
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
GRCr82010,438,404 - 10,498,740 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl2010,438,404 - 10,498,740 (+)EnsemblGRCr8
mRatBN7.22010,438,737 - 10,499,074 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2010,438,737 - 10,499,074 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx2011,138,619 - 11,198,081 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02010,499,518 - 10,558,974 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02010,971,004 - 11,031,340 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.02011,168,298 - 11,228,634 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2011,168,298 - 11,228,625 (+)Ensemblrn6Rnor6.0
Rnor_5.02013,338,328 - 13,398,197 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.42010,774,972 - 10,833,551 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera2011,945,494 - 12,005,453 (+)NCBICelera
RGSC_v3.12010,775,337 - 10,833,373 (+)NCBI
Cytogenetic Map20p12NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

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. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
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:12477932   PMID:21525244  


Genomics

Comparative Map Data
Trappc10
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82010,438,404 - 10,498,740 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl2010,438,404 - 10,498,740 (+)EnsemblGRCr8
mRatBN7.22010,438,737 - 10,499,074 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2010,438,737 - 10,499,074 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx2011,138,619 - 11,198,081 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02010,499,518 - 10,558,974 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02010,971,004 - 11,031,340 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.02011,168,298 - 11,228,634 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2011,168,298 - 11,228,625 (+)Ensemblrn6Rnor6.0
Rnor_5.02013,338,328 - 13,398,197 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.42010,774,972 - 10,833,551 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera2011,945,494 - 12,005,453 (+)NCBICelera
RGSC_v3.12010,775,337 - 10,833,373 (+)NCBI
Cytogenetic Map20p12NCBI
TRAPPC10
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382144,012,309 - 44,106,552 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2144,012,309 - 44,106,552 (+)Ensemblhg38GRCh38
GRCh372145,432,190 - 45,526,433 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362144,256,634 - 44,350,861 (+)NCBIBuild 36Build 36hg18NCBI36
Build 342144,256,633 - 44,350,858NCBI
Celera2130,537,856 - 30,632,073 (+)NCBICelera
Cytogenetic Map21q22.3NCBI
HuRef2130,802,706 - 30,896,716 (+)NCBIHuRef
CHM1_12144,993,075 - 45,087,324 (+)NCBICHM1_1
T2T-CHM13v2.02142,367,933 - 42,462,167 (+)NCBIT2T-CHM13v2.0
Trappc10
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391078,021,256 - 78,080,479 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1078,022,559 - 78,080,475 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381078,185,422 - 78,244,645 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1078,186,725 - 78,244,641 (-)Ensemblmm10GRCm38
MGSCv371077,649,470 - 77,707,387 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361077,589,854 - 77,647,771 (-)NCBIMGSCv36mm8
MGSCv361078,636,349 - 78,694,899 (-)NCBIMGSCv36mm8
Celera1079,218,441 - 79,266,801 (-)NCBICelera
Cytogenetic Map10C1NCBI
cM Map1039.72NCBI
Trappc10
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540741,271,526 - 41,347,850 (-)Ensembl
ChiLan1.0NW_00495540741,271,526 - 41,347,850 (-)NCBIChiLan1.0ChiLan1.0
TRAPPC10
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22240,019,092 - 40,113,755 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12134,869,578 - 34,963,931 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02130,269,085 - 30,363,396 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12143,585,857 - 43,659,760 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2143,581,617 - 43,656,740 (+)EnsemblpanPan2panpan1.1
TRAPPC10
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13137,910,480 - 37,999,559 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3137,910,322 - 37,997,188 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha3137,068,172 - 37,157,166 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.03137,458,321 - 37,547,367 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3137,458,042 - 37,544,610 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13137,325,478 - 37,414,482 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03137,309,419 - 37,398,424 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03137,804,185 - 37,893,214 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Trappc10
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440497137,138,518 - 37,203,107 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936500264,644 - 329,355 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936500264,716 - 317,419 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TRAPPC10
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13206,936,333 - 207,013,102 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.113206,936,311 - 207,013,112 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
TRAPPC10
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1287,760,813 - 87,856,630 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl287,761,479 - 87,857,418 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366605415,849,538 - 15,947,486 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Trappc10
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474529,961,054 - 30,031,113 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462474529,959,237 - 30,031,074 (-)NCBIHetGla 1.0HetGla 1.0hetGla2

Variants

.
Variants in Trappc10
748 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:280
Count of miRNA genes:188
Interacting mature miRNAs:211
Transcripts:ENSRNOT00000032240
Prediction methods:Miranda
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
4889610Pancm3Pancreatic morphology QTL 33.750.001pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)20418947649189476Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20126925056Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20133724594Rat
7387283Uae44Urinary albumin excretion QTL 440.1712urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)20126128279Rat
4889870Pur30Proteinuria QTL 30190.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20804392029865039Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20136600300Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20153308346533083Rat
1354642Despr15Despair related QTL 150.0027locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)20124164241Rat
1558640Prcs2Prostate cancer susceptibility QTL 23.3prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)20134066551Rat
631265Iresp1Immunoglobin response QTL18.3blood anti-double stranded DNA antibody amount (VT:0004762)serum anti-DNA antibody level (CMO:0001533)20904109911115921Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20129193376Rat
4889857Pur27Proteinuria QTL 2712.20.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20127341128Rat
1598870Bp289Blood pressure QTL 2892.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)20821635953216359Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20129193376Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20129193376Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20129193376Rat
1581577Pur15Proteinuria QTL 154.380.0002urine total protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)20804392015089182Rat
1598858Cm61Cardiac mass QTL 613.6heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)20821635953216359Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20129193376Rat
61432Cia1Collagen induced arthritis QTL 1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)20114100378Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127341128Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127341128Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20132578510Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20136600300Rat

Markers in Region
BE120517  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22010,472,489 - 10,472,644 (+)MAPPERmRatBN7.2
Rnor_6.02011,202,051 - 11,202,205NCBIRnor6.0
Rnor_5.02013,371,614 - 13,371,768UniSTSRnor5.0
RGSC_v3.42010,808,724 - 10,808,878UniSTSRGSC3.4
Celera2011,978,850 - 11,979,004UniSTS
RH 3.4 Map20152.73UniSTS
Cytogenetic Map20p12UniSTS
RH141836  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22010,497,116 - 10,497,308 (+)MAPPERmRatBN7.2
Rnor_6.02011,226,677 - 11,226,868NCBIRnor6.0
Rnor_5.02013,396,240 - 13,396,431UniSTSRnor5.0
RGSC_v3.42010,833,879 - 10,834,070UniSTSRGSC3.4
Celera2012,003,496 - 12,003,687UniSTS
RH 3.4 Map20141.8UniSTS
Cytogenetic Map20p12UniSTS
UniSTS:259664  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22010,496,922 - 10,497,411 (+)MAPPERmRatBN7.2
Rnor_6.02011,226,483 - 11,226,971NCBIRnor6.0
Rnor_5.02013,396,046 - 13,396,534UniSTSRnor5.0
RGSC_v3.42010,833,685 - 10,834,173UniSTSRGSC3.4
Celera2012,003,302 - 12,003,790UniSTS
Cytogenetic Map20p12UniSTS


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: ENSRNOT00000032240   ⟹   ENSRNOP00000030074
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl2010,438,404 - 10,498,740 (+)Ensembl
mRatBN7.2 Ensembl2010,438,737 - 10,499,074 (+)Ensembl
Rnor_6.0 Ensembl2011,168,298 - 11,228,625 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000118263   ⟹   ENSRNOP00000091625
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl2010,438,404 - 10,498,740 (+)Ensembl
mRatBN7.2 Ensembl2010,438,737 - 10,499,074 (+)Ensembl
RefSeq Acc Id: NM_001173528   ⟹   NP_001166999
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82010,438,404 - 10,498,740 (+)NCBI
mRatBN7.22010,438,737 - 10,499,074 (+)NCBI
Rnor_6.02011,168,298 - 11,228,634 (+)NCBI
Rnor_5.02013,338,328 - 13,398,197 (+)NCBI
Celera2011,945,494 - 12,005,453 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001166999 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI68733 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000030074
  ENSRNOP00000030074.3
  ENSRNOP00000091625.1
RefSeq Acc Id: NP_001166999   ⟸   NM_001173528
- UniProtKB: F1MAQ4 (UniProtKB/TrEMBL),   A0A8I6GJ45 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000030074   ⟸   ENSRNOT00000032240
Ensembl Acc Id: ENSRNOP00000091625   ⟸   ENSRNOT00000118263
Protein Domains
TRAPP II complex TRAPPC10 C-terminal

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1MAQ4-F1-model_v2 AlphaFold F1MAQ4 1-1259 view protein structure

Transcriptome

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

Promoters
RGD ID:13701486
Promoter ID:EPDNEW_R12010
Type:multiple initiation site
Name:Trappc10_1
Description:trafficking protein particle complex 10
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_6.02011,168,301 - 11,168,361EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1311263 AgrOrtholog
BioCyc Gene G2FUF-4279 BioCyc
Ensembl Genes ENSRNOG00000023210 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000032240 ENTREZGENE
  ENSRNOT00000032240.5 UniProtKB/TrEMBL
  ENSRNOT00000118263.1 UniProtKB/TrEMBL
InterPro Ig_TRAPPC10 UniProtKB/TrEMBL
  TRAPPC10 UniProtKB/TrEMBL
  TRAPPC10/Trs130 UniProtKB/TrEMBL
  TRAPPC10/Trs130_N UniProtKB/TrEMBL
KEGG Report rno:309678 UniProtKB/TrEMBL
NCBI Gene 309678 ENTREZGENE
PANTHER PTHR13251 UniProtKB/TrEMBL
  TRAFFICKING PROTEIN PARTICLE COMPLEX SUBUNIT 10 UniProtKB/TrEMBL
Pfam Ig_TRAPPC10 UniProtKB/TrEMBL
  TRAPPC10 UniProtKB/TrEMBL
  TRAPPC10_1st UniProtKB/TrEMBL
PhenoGen Trappc10 PhenoGen
RatGTEx ENSRNOG00000023210 RatGTEx
UniProt A0A8I6GJ45 ENTREZGENE, UniProtKB/TrEMBL
  B5DEN0_RAT UniProtKB/TrEMBL
  F1MAQ4 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-02-18 Trappc10  trafficking protein particle complex subunit 10  Trappc10  trafficking protein particle complex 10  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-25 Trappc10  trafficking protein particle complex 10  Tmem1  transmembrane protein 1   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Tmem1  transmembrane protein 1   Tmem1_predicted  transmembrane protein 1 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Tmem1_predicted  transmembrane protein 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED