Trappc2l (trafficking protein particle complex subunit 2L) - Rat Genome Database

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Gene: Trappc2l (trafficking protein particle complex subunit 2L) Rattus norvegicus
Analyze
Symbol: Trappc2l (Ensembl: LOC100909916)
Name: trafficking protein particle complex subunit 2L (Ensembl:trafficking protein particle complex subunit 2-like protein-like)
RGD ID: 1304906
Description: Predicted to be involved in endoplasmic reticulum to Golgi vesicle-mediated transport. Predicted to be located in cytosol and intracellular membrane-bounded organelle. Predicted to be part of TRAPP complex. Predicted to be active in cytoplasm and nucleus. Orthologous to human TRAPPC2L (trafficking protein particle complex subunit 2L); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; amphetamine; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC292074; RGD1304906; similar to hypothetical protein, 2-6; trafficking protein particle complex 2-like; trafficking protein particle complex subunit 2-like protein
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
GRCr81967,570,954 - 67,574,722 (+)NCBIGRCr8
mRatBN7.21950,662,507 - 50,666,193 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1950,662,507 - 50,666,192 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1957,457,282 - 57,460,967 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01958,137,424 - 58,141,109 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01960,355,900 - 60,359,585 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01955,423,350 - 55,428,551 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1955,423,350 - 55,427,036 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01966,131,866 - 66,135,551 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41952,890,720 - 52,894,406 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11952,895,601 - 52,899,288 (+)NCBI
Celera1949,901,904 - 49,905,589 (+)NCBICelera
Cytogenetic Map19q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. 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
Trappc2l
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81967,570,954 - 67,574,722 (+)NCBIGRCr8
mRatBN7.21950,662,507 - 50,666,193 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1950,662,507 - 50,666,192 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1957,457,282 - 57,460,967 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01958,137,424 - 58,141,109 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01960,355,900 - 60,359,585 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01955,423,350 - 55,428,551 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1955,423,350 - 55,427,036 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01966,131,866 - 66,135,551 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41952,890,720 - 52,894,406 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11952,895,601 - 52,899,288 (+)NCBI
Celera1949,901,904 - 49,905,589 (+)NCBICelera
Cytogenetic Map19q12NCBI
TRAPPC2L
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381688,856,220 - 88,862,678 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1688,856,220 - 88,862,686 (+)EnsemblGRCh38hg38GRCh38
GRCh371688,922,628 - 88,929,086 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361687,451,007 - 87,455,021 (+)NCBINCBI36Build 36hg18NCBI36
Celera1673,992,097 - 73,996,111 (+)NCBICelera
Cytogenetic Map16q24.3NCBI
HuRef1674,620,627 - 74,624,641 (+)NCBIHuRef
CHM1_11690,334,774 - 90,338,788 (+)NCBICHM1_1
T2T-CHM13v2.01694,926,614 - 94,933,072 (+)NCBIT2T-CHM13v2.0
Trappc2l
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398123,338,365 - 123,342,330 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8123,338,379 - 123,343,399 (+)EnsemblGRCm39 Ensembl
GRCm388122,611,626 - 122,615,591 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8122,611,640 - 122,616,660 (+)EnsemblGRCm38mm10GRCm38
MGSCv378125,135,526 - 125,139,491 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv368125,497,742 - 125,501,679 (+)NCBIMGSCv36mm8
Celera8126,841,229 - 126,845,218 (+)NCBICelera
Cytogenetic Map8E1NCBI
cM Map871.92NCBI
Trappc2l
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555412,710,938 - 2,718,804 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555412,711,051 - 2,715,458 (+)NCBIChiLan1.0ChiLan1.0
TRAPPC2L
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21898,631,440 - 98,635,546 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan116104,543,986 - 104,548,092 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01669,571,438 - 69,575,556 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11689,226,211 - 89,231,854 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1689,226,220 - 89,231,854 (+)Ensemblpanpan1.1panPan2
TRAPPC2L
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1564,529,186 - 64,534,090 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl564,530,746 - 64,534,035 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha564,542,220 - 64,545,564 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0564,750,913 - 64,754,258 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl564,748,641 - 64,754,213 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1564,777,042 - 64,780,387 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0564,608,690 - 64,612,039 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0565,014,780 - 65,018,121 (-)NCBIUU_Cfam_GSD_1.0
Trappc2l
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934925,129,827 - 25,136,607 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936641883,292 - 889,414 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936641887,034 - 889,435 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TRAPPC2L
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6863,805 - 869,226 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.16865,498 - 869,253 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.261,055,728 - 1,059,490 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LOC103233459
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1574,243,395 - 74,248,579 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl574,243,405 - 74,247,598 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660471,427,771 - 1,433,829 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Trappc2l
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624746781,833 - 786,131 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624746781,833 - 786,163 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Trappc2l
7 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:50
Count of miRNA genes:46
Interacting mature miRNAs:49
Transcripts:ENSRNOT00000019740
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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2313395Anxrr26Anxiety related response QTL 26aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)194997648153225766Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)191563020157337602Rat
61350Bp32Blood pressure QTL 320.012arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)192048357557337602Rat
5135224Leukc1Leukocyte quantity QTL 1eosinophil quantity (VT:0002602)blood eosinophil count (CMO:0000033)194434021455283277Rat
724546Kidm3Kidney mass QTL 33.1kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)192932249057337602Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)191545586057337602Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)193383821455283146Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19218792756457239Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19409615555283277Rat
2298478Eau8Experimental allergic uveoretinitis QTL 80.0163uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)191715443357337602Rat

Markers in Region
RH141164  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.0312,330,692 - 12,330,900NCBIRnor5.0
Rnor_5.01966,134,478 - 66,135,490NCBIRnor5.0
Rnor_5.01925,865,579 - 25,865,787NCBIRnor5.0
Rnor_5.05102,728,621 - 102,728,829NCBIRnor5.0
RGSC_v3.41914,186,597 - 14,186,804UniSTSRGSC3.4
RGSC_v3.41952,893,334 - 52,894,345UniSTSRGSC3.4
Celera1949,904,517 - 49,905,528UniSTS
Cytogenetic Map19q12UniSTS
Cytogenetic Map19p11UniSTS


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
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000019740   ⟹   ENSRNOP00000019740
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1950,662,507 - 50,666,192 (+)Ensembl
Rnor_6.0 Ensembl1955,423,350 - 55,427,036 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000104206   ⟹   ENSRNOP00000081990
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1950,663,848 - 50,666,192 (+)Ensembl
RefSeq Acc Id: NM_001106193   ⟹   NP_001099663
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81967,571,037 - 67,574,722 (+)NCBI
mRatBN7.21950,662,507 - 50,666,192 (+)NCBI
Rnor_6.01955,423,350 - 55,427,036 (+)NCBI
Rnor_5.01966,131,866 - 66,135,551 (+)NCBI
RGSC_v3.41952,890,720 - 52,894,406 (+)RGD
Celera1949,901,904 - 49,905,589 (+)RGD
Sequence:
RefSeq Acc Id: XM_063277949   ⟹   XP_063134019
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81967,570,954 - 67,574,721 (+)NCBI
RefSeq Acc Id: XM_063277950   ⟹   XP_063134020
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81967,572,245 - 67,574,721 (+)NCBI
RefSeq Acc Id: NP_001099663   ⟸   NM_001106193
- UniProtKB: B2RYU6 (UniProtKB/Swiss-Prot),   A0A8I5ZSU0 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000019740   ⟸   ENSRNOT00000019740
Ensembl Acc Id: ENSRNOP00000081990   ⟸   ENSRNOT00000104206
RefSeq Acc Id: XP_063134019   ⟸   XM_063277949
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063134020   ⟸   XM_063277950
- Peptide Label: isoform X2

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B2RYU6-F1-model_v2 AlphaFold B2RYU6 1-139 view protein structure

Transcriptome

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

Promoters
RGD ID:13701214
Promoter ID:EPDNEW_R11737
Type:multiple initiation site
Name:Trappc2l_1
Description:trafficking protein particle complex 2-like
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_6.01955,423,355 - 55,423,415EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1304906 AgrOrtholog
BioCyc Gene G2FUF-5379 BioCyc
Ensembl Genes ENSRNOG00000014581 Ensembl, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000019740.6 UniProtKB/Swiss-Prot
  ENSRNOT00000104206.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.450.70 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:6888592 IMAGE-MGC_LOAD
  IMAGE:6918252 IMAGE-MGC_LOAD
InterPro Longin-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Sedlin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TRAPPC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TRAPPC2L UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:292074 UniProtKB/Swiss-Prot
MGC_CLONE MGC:188874 IMAGE-MGC_LOAD
  MGC:188904 IMAGE-MGC_LOAD
NCBI Gene 292074 ENTREZGENE
PANTHER PTHR12403 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Sedlin_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Trappc2l PhenoGen
RatGTEx ENSRNOG00000014581 RatGTEx
  ENSRNOG00055020566 RatGTEx
  ENSRNOG00060016889 RatGTEx
  ENSRNOG00065018277 RatGTEx
SMART Sybindin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF64356 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I5ZSU0 ENTREZGENE, UniProtKB/TrEMBL
  A6IZT5_RAT UniProtKB/TrEMBL
  B2RYU6 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-02-18 Trappc2l  trafficking protein particle complex subunit 2L  Trappc2l  trafficking protein particle complex 2-like  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-04 Trappc2l  trafficking protein particle complex 2-like  RGD1304906_predicted  similar to hypothetical protein, 2-6 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 RGD1304906_predicted  similar to hypothetical protein, 2-6 (predicted)  LOC292074_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC292074_predicted  similar to hypothetical protein, 2-6 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL