TRAPPC4 (trafficking protein particle complex subunit 4) - Rat Genome Database

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Gene: TRAPPC4 (trafficking protein particle complex subunit 4) Sus scrofa
Analyze
Symbol: TRAPPC4
Name: trafficking protein particle complex subunit 4
RGD ID: 13888729
Description: INVOLVED IN autophagy (inferred); dendrite development (inferred); endoplasmic reticulum to Golgi vesicle-mediated transport (inferred); PARTICIPATES IN syndecan signaling pathway; ASSOCIATED WITH CD3epsilon deficiency (ortholog); Chromosome 11, Partial Trisomy 11q (ortholog); Dwarfism (ortholog); FOUND IN postsynaptic density membrane (ortholog); presynaptic active zone (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: trafficking protein particle complex 4
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl946,242,171 - 46,246,343 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1946,242,196 - 46,246,344 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2951,277,344 - 51,281,440 (+)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:14681463   PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
TRAPPC4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl946,242,171 - 46,246,343 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1946,242,196 - 46,246,344 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2951,277,344 - 51,281,440 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TRAPPC4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3811119,018,766 - 119,024,134 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl11119,018,763 - 119,025,454 (+)EnsemblGRCh38hg38GRCh38
GRCh3711118,889,476 - 118,894,844 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3611118,394,451 - 118,399,592 (+)NCBINCBI36Build 36hg18NCBI36
Build 3411118,394,450 - 118,399,592NCBI
Celera11116,046,377 - 116,052,437 (+)NCBICelera
Cytogenetic Map11q23.3NCBI
HuRef11114,828,900 - 114,834,043 (+)NCBIHuRef
CHM1_111118,775,524 - 118,780,675 (+)NCBICHM1_1
T2T-CHM13v2.011119,039,128 - 119,044,496 (+)NCBIT2T-CHM13v2.0
Trappc4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39944,315,057 - 44,318,629 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl944,314,995 - 44,318,897 (-)EnsemblGRCm39 Ensembl
GRCm38944,403,755 - 44,407,548 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl944,403,698 - 44,407,600 (-)EnsemblGRCm38mm10GRCm38
MGSCv37944,211,842 - 44,215,631 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36944,154,754 - 44,158,543 (-)NCBIMGSCv36mm8
Celera941,651,351 - 41,655,138 (-)NCBICelera
Cytogenetic Map9A5.2NCBI
cM Map924.84NCBI
Trappc4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8853,626,382 - 53,630,042 (-)NCBIGRCr8
mRatBN7.2844,729,458 - 44,733,285 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl844,725,331 - 44,733,491 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx850,226,305 - 50,229,433 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0848,505,022 - 48,508,150 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0846,375,027 - 46,378,168 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0848,723,755 - 48,727,182 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl848,723,191 - 48,727,154 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0847,342,790 - 47,345,927 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4847,370,776 - 47,373,913 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1847,379,541 - 47,382,679 (-)NCBI
Celera844,316,326 - 44,319,347 (-)NCBICelera
Cytogenetic Map8q22NCBI
Trappc4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541220,129,154 - 20,133,043 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541220,129,154 - 20,133,043 (+)NCBIChiLan1.0ChiLan1.0
TRAPPC4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v29119,723,555 - 119,728,426 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan111120,827,317 - 120,832,180 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v011113,856,661 - 113,861,855 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.111117,786,819 - 117,792,022 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl11117,786,838 - 117,793,395 (+)Ensemblpanpan1.1panPan2
TRAPPC4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1514,830,604 - 14,833,444 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl514,830,611 - 14,833,447 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha514,883,525 - 14,886,365 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0514,773,878 - 14,776,718 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1514,912,127 - 14,914,965 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0514,815,874 - 14,818,713 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0514,856,269 - 14,859,109 (-)NCBIUU_Cfam_GSD_1.0
Trappc4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947101,055,940 - 101,058,754 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365423,977,358 - 3,979,906 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365423,977,223 - 3,980,168 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TRAPPC4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11110,389,582 - 110,395,135 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1110,389,914 - 110,394,959 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604315,639,167 - 15,644,328 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Trappc4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462478414,410,251 - 14,414,531 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462478414,410,429 - 14,414,531 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in TRAPPC4
133 total Variants

Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 1 1
Low 10 4 3 5 2 22 2 2 3
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000047653   ⟹   ENSSSCP00000032135
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl946,242,171 - 46,246,342 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000083954   ⟹   ENSSSCP00000060735
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl946,242,529 - 46,246,343 (+)Ensembl
RefSeq Acc Id: XM_003129918   ⟹   XP_003129966
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1946,242,196 - 46,246,344 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013979461   ⟹   XP_013834915
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1946,242,472 - 46,246,344 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021062949   ⟹   XP_020918608
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1946,242,483 - 46,246,344 (+)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_003129966   ⟸   XM_003129918
- Peptide Label: isoform X2
- UniProtKB: A0A286ZKY8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013834915   ⟸   XM_013979461
- Peptide Label: isoform X1
- UniProtKB: A0A286ZKY8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020918608   ⟸   XM_021062949
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: ENSSSCP00000060735   ⟸   ENSSSCT00000083954
RefSeq Acc Id: ENSSSCP00000032135   ⟸   ENSSSCT00000047653


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000037439 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00005005479 UniProtKB/TrEMBL
  ENSSSCG00015027132 UniProtKB/TrEMBL
  ENSSSCG00025014542 UniProtKB/TrEMBL
  ENSSSCG00030057404 UniProtKB/TrEMBL
  ENSSSCG00035013173 UniProtKB/TrEMBL
  ENSSSCG00040064907 UniProtKB/TrEMBL
  ENSSSCG00045033998 UniProtKB/TrEMBL
  ENSSSCG00050043497 UniProtKB/TrEMBL
  ENSSSCG00055024880 UniProtKB/TrEMBL
  ENSSSCG00060016466 UniProtKB/TrEMBL
  ENSSSCG00065075824 UniProtKB/TrEMBL
  ENSSSCG00070001656 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000047653 ENTREZGENE
  ENSSSCT00000047653.3 UniProtKB/TrEMBL
  ENSSSCT00000083954.2 UniProtKB/TrEMBL
  ENSSSCT00005008283.1 UniProtKB/TrEMBL
  ENSSSCT00015036153.1 UniProtKB/TrEMBL
  ENSSSCT00025019400.1 UniProtKB/TrEMBL
  ENSSSCT00030080075.1 UniProtKB/TrEMBL
  ENSSSCT00035016631.1 UniProtKB/TrEMBL
  ENSSSCT00040088601.1 UniProtKB/TrEMBL
  ENSSSCT00045058108.1 UniProtKB/TrEMBL
  ENSSSCT00045058154.1 UniProtKB/TrEMBL
  ENSSSCT00050059203.1 UniProtKB/TrEMBL
  ENSSSCT00055049054.1 UniProtKB/TrEMBL
  ENSSSCT00055049098.1 UniProtKB/TrEMBL
  ENSSSCT00060021949.1 UniProtKB/TrEMBL
  ENSSSCT00065104708.1 UniProtKB/TrEMBL
  ENSSSCT00070003163.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.450.70 UniProtKB/TrEMBL
InterPro Longin-like_dom_sf UniProtKB/TrEMBL
  TRAPPC UniProtKB/TrEMBL
KEGG Report ssc:100516212 UniProtKB/TrEMBL
NCBI Gene TRAPPC4 ENTREZGENE
PANTHER PTHR23249 UniProtKB/TrEMBL
  TRAFFICKING PROTEIN PARTICLE COMPLEX SUBUNIT 4 UniProtKB/TrEMBL
Pfam Sybindin UniProtKB/TrEMBL
SMART Sybindin UniProtKB/TrEMBL
Superfamily-SCOP SSF64356 UniProtKB/TrEMBL
UniProt A0A286ZKY8 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1SKI9_PIG UniProtKB/TrEMBL
  A0A5G2QR30_PIG UniProtKB/TrEMBL
  A0A8D2A490_PIG UniProtKB/TrEMBL
VGNC ID VGNC:94376 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-02-15 TRAPPC4  trafficking protein particle complex subunit 4  TRAPPC4  trafficking protein particle complex 4  Symbol and/or name change 19259463 PROVISIONAL