Trappc4 (trafficking protein particle complex subunit 4)

Gene: Trappc4 (trafficking protein particle complex subunit 4) Ictidomys tridecemlineatus

Analyze

Symbol:

Trappc4

Name:

trafficking protein particle complex subunit 4 (Ensembl:trafficking protein particle complex 4)

RGD ID:

12462305

Description:

INVOLVED IN autophagy (ortholog); dendrite development (ortholog); PARTICIPATES IN syndecan signaling pathway; ASSOCIATED WITH CD3epsilon deficiency (ortholog); Chromosome 11, Partial Trisomy 11q (ortholog); Dwarfism (ortholog); FOUND IN dendrite (ortholog); Golgi stack (ortholog); postsynaptic density membrane (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

trafficking protein particle complex 4

RGD Orthologs

Alliance Genes

More Info

more info ...

Latest Assembly:

SpeTri2.0 - Squirrel SpeTri2.0 Assembly

Position:

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024404947	101,055,940 - 101,058,754 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936542	3,977,358 - 3,979,906 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936542	3,977,223 - 3,980,168 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

CD3epsilon deficiency (ISO)

Chromosome 11, Partial Trisomy 11q (ISO)

Dwarfism (ISO)

genetic disease (ISO)

glycogen storage disease Ib (ISO)

immunodeficiency 17 (ISO)

immunodeficiency 18 (ISO)

immunodeficiency 19 (ISO)

inflammatory bowel disease 28 (ISO)

isolated microphthalmia 5 (ISO)

long QT syndrome 10 (ISO)

Neurodevelopmental Disorder with Epilepsy, Spasticity, and Brain Atrophy (ISO)

Neurodevelopmental Disorder with Progressive Microcephaly, Spasticity, and Brain Anomalies (ISO)

RASopathy (ISO)

schizophrenia (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

autophagy (ISO)

dendrite development (ISO)

endoplasmic reticulum to Golgi vesicle-mediated transport (IEA)

vesicle-mediated transport (IEA)

Cellular Component

dendrite (ISO)

endoplasmic reticulum (IEA)

Golgi apparatus (IEA)

Golgi stack (ISO)

postsynaptic density membrane (ISO)

presynaptic active zone (ISO)

synapse (ISO)

synaptic vesicle (ISO)

TRAPP complex (IEA)

Molecular Function

protein binding (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

syndecan signaling pathway (ISO)

References

Additional References at PubMed

PMID:22301074	PMID:30032202

Genomics

Comparative Map Data

Trappc4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024404947	101,055,940 - 101,058,754 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936542	3,977,358 - 3,979,906 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936542	3,977,223 - 3,980,168 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

TRAPPC4
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	11	119,018,766 - 119,024,134 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	11	119,018,763 - 119,025,454 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	11	118,889,476 - 118,894,844 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	11	118,394,451 - 118,399,592 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	11	118,394,450 - 118,399,592	NCBI
Celera	11	116,046,377 - 116,052,437 (+)	NCBI		Celera
Cytogenetic Map	11	q23.3	NCBI
HuRef	11	114,828,900 - 114,834,043 (+)	NCBI		HuRef
CHM1_1	11	118,775,524 - 118,780,675 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	11	119,039,128 - 119,044,496 (+)	NCBI		T2T-CHM13v2.0

Trappc4
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	9	44,315,057 - 44,318,629 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	9	44,314,995 - 44,318,897 (-)	Ensembl		GRCm39 Ensembl
GRCm38	9	44,403,755 - 44,407,548 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	9	44,403,698 - 44,407,600 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	9	44,211,842 - 44,215,631 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	9	44,154,754 - 44,158,543 (-)	NCBI		MGSCv36	mm8
Celera	9	41,651,351 - 41,655,138 (-)	NCBI		Celera
Cytogenetic Map	9	A5.2	NCBI
cM Map	9	24.84	NCBI

Trappc4
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	8	53,626,382 - 53,630,042 (-)	NCBI		GRCr8
mRatBN7.2	8	44,729,458 - 44,733,285 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	8	44,725,331 - 44,733,491 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	8	50,226,305 - 50,229,433 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	8	48,505,022 - 48,508,150 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	8	46,375,027 - 46,378,168 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	8	48,723,755 - 48,727,182 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	8	48,723,191 - 48,727,154 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	8	47,342,790 - 47,345,927 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	8	47,370,776 - 47,373,913 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	8	47,379,541 - 47,382,679 (-)	NCBI
Celera	8	44,316,326 - 44,319,347 (-)	NCBI		Celera
Cytogenetic Map	8	q22	NCBI

Trappc4
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955412	20,129,154 - 20,133,043 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955412	20,129,154 - 20,133,043 (+)	NCBI	ChiLan1.0	ChiLan1.0

TRAPPC4
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	9	119,723,555 - 119,728,426 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	11	120,827,317 - 120,832,180 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	11	113,856,661 - 113,861,855 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	11	117,786,819 - 117,792,022 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	11	117,786,838 - 117,793,395 (+)	Ensembl	panpan1.1		panPan2

TRAPPC4
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	5	14,830,604 - 14,833,444 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	5	14,830,611 - 14,833,447 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	5	14,883,525 - 14,886,365 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	5	14,773,878 - 14,776,718 (-)	NCBI		ROS_Cfam_1.0
UMICH_Zoey_3.1	5	14,912,127 - 14,914,965 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	5	14,815,874 - 14,818,713 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	5	14,856,269 - 14,859,109 (-)	NCBI		UU_Cfam_GSD_1.0

TRAPPC4
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	9	46,242,171 - 46,246,343 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	9	46,242,196 - 46,246,344 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	9	51,277,344 - 51,281,440 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

TRAPPC4
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	1	110,389,582 - 110,395,135 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	1	110,389,914 - 110,394,959 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666043	15,639,167 - 15,644,328 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Trappc4
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624784	14,410,251 - 14,414,531 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624784	14,410,429 - 14,414,531 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005328345	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JAESOR010000006	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSSTOT00000014338 ⟹ ENSSTOP00000012841

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
SpeTri2.0 Ensembl	NW_004936542	3,977,510 - 3,979,906 (+)	Ensembl

RefSeq Acc Id:

ENSSTOT00000031843 ⟹ ENSSTOP00000031011

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
SpeTri2.0 Ensembl	NW_004936542	3,977,358 - 3,979,595 (+)	Ensembl

RefSeq Acc Id:

ENSSTOT00000040995 ⟹ ENSSTOP00000025128

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
SpeTri2.0 Ensembl	NW_004936542	3,977,510 - 3,979,906 (+)	Ensembl

RefSeq Acc Id:

XM_005328345 ⟹ XP_005328402

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024404947	101,055,940 - 101,058,754 (+)	NCBI
SpeTri2.0	NW_004936542	3,977,223 - 3,980,168 (+)	NCBI

Sequence:

show sequence

GCGGGATGAGGGAAATGAACGCCGGTGCCTGAGCCGCGCACTCTAGATACTGCCCCTTGCTTGT
TGGACTGCCGCTAGTTATGAAGCAAAGCGCTATCCAGACACCGAGAAGCACAGCAGTACTGCTA
GGCCCAGGCGTGTAGCCCCGAGTGCGCAAGCGCCGCAAGTAGCAAGCTGGGGGTTAGGAGGAGA
AAGCTGGTGCTGGCCGGGGCAGGTGCTGTGACGGCAGTTCCGGGGCGGGACTTCGAGAAGTAAC
CGGACCCAATTTTTAAGAGGCAGAGGCTGCAATGGCGATTTTTAGCGTGTATGTGGTGAATAAA
GCTGGTGGCCTCATTTACCAGTTGGATAGCTACGCGCCCCGGGCTGAGGCTGAGAAAACGTTCA
GTTACCCGCTGGATCTGCTGCTCAAGCTACATGACGAGCGTGTGCTGGTTGCCTTCGGACAGCG
CGATGGCATCCGGGTGGGCCACGCAGTGCTGGCCATCAATGGCATAGACGTGAACGGCAAGTTC
ACGGGCGACGGGAAAGAGGTGCTGGAGTATCTGGGTAACCCTGCTAATTACCCGGTGTCCATTC
GGTTCGGTCGGCCCCGCCTCACCTCCAATGAGAAGCTTATGCTGGCCTCCATGTTCCACTCGCT
TTTTGCCATTGGCTCCCAGCTGTCTCCGGAACAGGGAAGCTCAGGCATTGAGATGCTGGAGACA
GACACTTTCAAACTGCACTGCTTCCAGACACTAACAGGGATCAAGTTTGTGGTGCTGGCAGATC
CTAGGCAAGCTGGAATAGATTCTCTTCTTCGAAAAATTTATGAAATTTACTCAGATTTTGCACT
CAAGAATCCATTCTACTCCCTGGAAATGCCCATCAGGTGTGAGCTGTTTGACCAGAACCTGAAG
CTAGCTTTGGAAGTGGCAGAGAAAGCTGGGACTTTTGGACCTGGGTCATAGATTAAATCTACAG
TGGACTCCCAAATTCTGAGAGATCGTGCAGCATGGGTTCTATTGTTTCCACTCCATTGGAGATC
CCAGCAGCCTTGTTAGTGTACTTGAAAATGGAAGGATACTGATATCTTGTCCTGATCCCTGAGC
TTTAATGGTATGCTTTCTTCTTTTCTGTAGATGTCATGGTCCTACTTCCCAACTCTGTACAGAT
TTATTTATGGAGGAGGTAGGCCCATGAATGCTATAATAAAACATTCCTTTGATCCAG

hide sequence

Protein Sequences


Protein RefSeqs	XP_005328402	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSSTOP00000012841.3
	ENSSTOP00000025128.1
	ENSSTOP00000031011.1
GenBank Protein	KAG3286681	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

XP_005328402 ⟸ XM_005328345

- UniProtKB:

A0A287DBY7 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MAIFSVYVVNKAGGLIYQLDSYAPRAEAEKTFSYPLDLLLKLHDERVLVAFGQRDGIRVGHAVL
AINGIDVNGKFTGDGKEVLEYLGNPANYPVSIRFGRPRLTSNEKLMLASMFHSLFAIGSQLSPE
QGSSGIEMLETDTFKLHCFQTLTGIKFVVLADPRQAGIDSLLRKIYEIYSDFALKNPFYSLEMP
IRCELFDQNLKLALEVAEKAGTFGPGS

hide sequence

RefSeq Acc Id:

ENSSTOP00000031011 ⟸ ENSSTOT00000031843

RefSeq Acc Id:

ENSSTOP00000025128 ⟸ ENSSTOT00000040995

RefSeq Acc Id:

ENSSTOP00000012841 ⟸ ENSSTOT00000014338

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSSTOG00000014340	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSSTOT00000014338.3	UniProtKB/TrEMBL
	ENSSTOT00000031843.1	UniProtKB/TrEMBL
	ENSSTOT00000040995.1	UniProtKB/TrEMBL
Gene3D-CATH	2.30.42.40	UniProtKB/TrEMBL
	3.30.450.70	UniProtKB/TrEMBL
InterPro	Longin-like_dom_sf	UniProtKB/TrEMBL
	TRAPPC	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	A0A287CV34_ICTTR	UniProtKB/TrEMBL
	A0A287DBY7	ENTREZGENE, UniProtKB/TrEMBL
	I3MMQ8_ICTTR	UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2021-02-16	Trappc4	trafficking protein particle complex subunit 4	Trappc4	trafficking protein particle complex 4	Symbol and/or name change	5135510	APPROVED

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

Imported Disease Annotations - ClinVar

Imported Disease Annotations - OMIM

Imported Annotations - PID (archival)

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - OMIM

Imported Annotations - PID (archival)