Vti1a vesicle transport through interaction with t-SNAREs 1A [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Vti1aprovided by RGD
Official Full Name: vesicle transport through interaction with t-SNAREs 1Aprovided by RGD
Primary source: RGD:621490
See related: Ensembl:ENSRNOG00000042786 AllianceGenome:RGD:621490
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Vti1; DD6A4-2(1)
Summary: Predicted to enable SNAP receptor activity and SNARE binding activity. Involved in endoplasmic reticulum to Golgi vesicle-mediated transport; synaptic vesicle to endosome fusion; and vesicle fusion with Golgi apparatus. Located in several cellular components, including cytoplasmic vesicle; neuronal cell body; and perinuclear region of cytoplasm. Part of SNARE complex. Orthologous to human VTI1A (vesicle transport through interaction with t-SNAREs 1A). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Thymus (RPKM 168.8), Spleen (RPKM 159.1) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 1q55

Exon count:: 15

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (264361538..264667171)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (254356343..254661854)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (276310072..276508635)

Chromosome 1 - NC_086019.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

The results of this study suggested that vtila selectively maintains spontaneous neurotransmitter release.
Title: Vti1a identifies a vesicle pool that preferentially recycles at rest and maintains spontaneous neurotransmission.
The results show that Munc13 homology domain-1 is a SNARE-binding domain and that SNARE protein binding is essential for CAPS function in dense-core vesicle exocytosis.
Title: Munc13 homology domain-1 in CAPS/UNC31 mediates SNARE binding required for priming vesicle exocytosis.
Data show direct interaction of SNARE complex binding protein synaphin/complexin with calcium sensor synaptotagmin 1.
Title: Direct interaction of SNARE complex binding protein synaphin/complexin with calcium sensor synaptotagmin 1.
Data describe a novel SNARE complex containing vti1a and vti1b, found on small synaptic vesicles and clathrin-coated vesicles isolated from nerve terminals.
Title: The SNAREs vti1a and vti1b have distinct localization and SNARE complex partners.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

AA891586 (e-PCR)
- UniSTS:249939

D1Rat87 (e-PCR)
- UniSTS:118623

RH128782 (e-PCR)
- UniSTS:212090

RH143954 (e-PCR)
- UniSTS:233200

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables SNAP receptor activity	IBA Inferred from Biological aspect of Ancestor more info
enables SNAP receptor activity	ISO Inferred from Sequence Orthology more info
enables SNARE binding	IBA Inferred from Biological aspect of Ancestor more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in Golgi to vacuole transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in autophagy	ISO Inferred from Sequence Orthology more info
involved_in endocytic recycling	ISO Inferred from Sequence Orthology more info
involved_in endoplasmic reticulum to Golgi vesicle-mediated transport	IDA Inferred from Direct Assay more info	PubMed
involved_in intra-Golgi vesicle-mediated transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in intracellular protein transport	IEA Inferred from Electronic Annotation more info
involved_in macroautophagy	IBA Inferred from Biological aspect of Ancestor more info
involved_in retrograde transport, endosome to Golgi	IBA Inferred from Biological aspect of Ancestor more info
involved_in retrograde transport, endosome to Golgi	ISO Inferred from Sequence Orthology more info
involved_in retrograde transport, endosome to Golgi	ISS Inferred from Sequence or Structural Similarity more info
involved_in synaptic vesicle to endosome fusion	IDA Inferred from Direct Assay more info	PubMed
involved_in synaptic vesicle to endosome fusion	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in vesicle fusion with Golgi apparatus	IBA Inferred from Biological aspect of Ancestor more info
involved_in vesicle fusion with Golgi apparatus	IDA Inferred from Direct Assay more info	PubMed
involved_in vesicle-mediated transport	IEA Inferred from Electronic Annotation more info
involved_in voluntary musculoskeletal movement	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in ER to Golgi transport vesicle membrane	IBA Inferred from Biological aspect of Ancestor more info
is_active_in Golgi apparatus	IBA Inferred from Biological aspect of Ancestor more info
located_in Golgi apparatus	ISO Inferred from Sequence Orthology more info
located_in Golgi membrane	IEA Inferred from Electronic Annotation more info
part_of SNARE complex	IBA Inferred from Biological aspect of Ancestor more info
part_of SNARE complex	IDA Inferred from Direct Assay more info	PubMed
located_in autophagosome	ISO Inferred from Sequence Orthology more info
located_in clathrin-coated vesicle	IDA Inferred from Direct Assay more info	PubMed
located_in clathrin-coated vesicle membrane	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
is_active_in endoplasmic reticulum membrane	IBA Inferred from Biological aspect of Ancestor more info
is_active_in hippocampal mossy fiber to CA3 synapse	IDA Inferred from Direct Assay more info	PubMed
located_in intracellular membrane-bounded organelle	IEA Inferred from Electronic Annotation more info
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
is_active_in late endosome membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in neuron projection terminus	IDA Inferred from Direct Assay more info	PubMed
located_in neuronal cell body	IDA Inferred from Direct Assay more info	PubMed
located_in perinuclear region of cytoplasm	IDA Inferred from Direct Assay more info	PubMed
is_active_in synaptic vesicle	IDA Inferred from Direct Assay more info	PubMed
located_in synaptic vesicle	IDA Inferred from Direct Assay more info	PubMed
is_active_in synaptic vesicle membrane	IDA Inferred from Direct Assay more info	PubMed
located_in terminal bouton	HDA more info	PubMed

General protein information

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Preferred Names: vesicle transport through interaction with t-SNAREs homolog 1A

Names: SNARE Vti1a-beta protein; vesicle transport v-SNARE protein Vti1-like 2; vti1-rp2

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_023101.1 → NP_075589.1 vesicle transport through interaction with t-SNAREs homolog 1A

See identical proteins and their annotated locations for NP_075589.1

Status: PROVISIONAL

Source sequence(s)

AF262221

UniProtKB/TrEMBL

A6JHZ7, F1M938

Related

ENSRNOP00000083070.1, ENSRNOT00000108016.1

Conserved Domains (2) summary

cd15891
Location:122 → 183

SNARE_Vti1a; SNARE motif of Vti1b-like

pfam05008
Location:12 → 90

V-SNARE; Vesicle transport v-SNARE protein N-terminus

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086019.1 Reference GRCr8

Range

264361538..264667171

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039090126.2 → XP_038946054.1 vesicle transport through interaction with t-SNAREs homolog 1A isoform X18

UniProtKB/TrEMBL

A6JHZ9

Conserved Domains (1) summary

pfam05008
Location:12 → 88

V-SNARE; Vesicle transport v-SNARE protein N-terminus
XM_039090066.2 → XP_038945994.1 vesicle transport through interaction with t-SNAREs homolog 1A isoform X1

UniProtKB/TrEMBL

F1M938

Conserved Domains (2) summary

cd15891
Location:129 → 195

SNARE_Vti1a; SNARE motif of Vti1b-like

pfam05008
Location:12 → 89

V-SNARE; Vesicle transport v-SNARE protein N-terminus
XM_039090071.2 → XP_038945999.1 vesicle transport through interaction with t-SNAREs homolog 1A isoform X2

UniProtKB/Swiss-Prot

Q9JI51, Q9JI52

UniProtKB/TrEMBL

A6JHZ6, F1M938

Conserved Domains (2) summary

cd15891
Location:129 → 190

SNARE_Vti1a; SNARE motif of Vti1b-like

pfam05008
Location:12 → 89

V-SNARE; Vesicle transport v-SNARE protein N-terminus
XM_039090073.2 → XP_038946001.1 vesicle transport through interaction with t-SNAREs homolog 1A isoform X3

UniProtKB/TrEMBL

F1M938

Conserved Domains (2) summary

cd15891
Location:122 → 188

SNARE_Vti1a; SNARE motif of Vti1b-like

pfam05008
Location:12 → 89

V-SNARE; Vesicle transport v-SNARE protein N-terminus
XM_039090088.2 → XP_038946016.1 vesicle transport through interaction with t-SNAREs homolog 1A isoform X9

UniProtKB/TrEMBL

F1M938

Conserved Domains (2) summary

cd15891
Location:129 → 195

SNARE_Vti1a; SNARE motif of Vti1b-like

pfam05008
Location:12 → 89

V-SNARE; Vesicle transport v-SNARE protein N-terminus
XM_039090093.2 → XP_038946021.1 vesicle transport through interaction with t-SNAREs homolog 1A isoform X10

UniProtKB/TrEMBL

F1M938

Conserved Domains (2) summary

cd15891
Location:129 → 190

SNARE_Vti1a; SNARE motif of Vti1b-like

pfam05008
Location:12 → 89

V-SNARE; Vesicle transport v-SNARE protein N-terminus
XM_039090083.2 → XP_038946011.1 vesicle transport through interaction with t-SNAREs homolog 1A isoform X5

UniProtKB/TrEMBL

F1M938

Conserved Domains (2) summary

cd15891
Location:129 → 190

SNARE_Vti1a; SNARE motif of Vti1b-like

pfam05008
Location:12 → 89

V-SNARE; Vesicle transport v-SNARE protein N-terminus
XM_039090086.2 → XP_038946014.1 vesicle transport through interaction with t-SNAREs homolog 1A isoform X7

UniProtKB/TrEMBL

F1M938

Conserved Domains (2) summary

cd15891
Location:122 → 183

SNARE_Vti1a; SNARE motif of Vti1b-like

pfam05008
Location:12 → 89

V-SNARE; Vesicle transport v-SNARE protein N-terminus
XM_039090089.2 → XP_038946017.1 vesicle transport through interaction with t-SNAREs homolog 1A isoform X9

UniProtKB/TrEMBL

F1M938

Conserved Domains (2) summary

cd15891
Location:129 → 195

SNARE_Vti1a; SNARE motif of Vti1b-like

pfam05008
Location:12 → 89

V-SNARE; Vesicle transport v-SNARE protein N-terminus
XM_039090081.2 → XP_038946009.1 vesicle transport through interaction with t-SNAREs homolog 1A isoform X4

UniProtKB/TrEMBL

F1M938

Related

ENSRNOP00000058953.3

Conserved Domains (2) summary

cd15891
Location:129 → 195

SNARE_Vti1a; SNARE motif of Vti1b-like

pfam05008
Location:12 → 89

V-SNARE; Vesicle transport v-SNARE protein N-terminus
XM_063273054.1 → XP_063129124.1 vesicle transport through interaction with t-SNAREs homolog 1A isoform X6

UniProtKB/TrEMBL

F1LT41, F1M938
XM_063273055.1 → XP_063129125.1 vesicle transport through interaction with t-SNAREs homolog 1A isoform X8

UniProtKB/TrEMBL

F1M938
XM_063273082.1 → XP_063129152.1 vesicle transport through interaction with t-SNAREs homolog 1A isoform X17
XM_039090100.2 → XP_038946028.1 vesicle transport through interaction with t-SNAREs homolog 1A isoform X11

Conserved Domains (2) summary

pfam05008
Location:12 → 89

V-SNARE; Vesicle transport v-SNARE protein N-terminus

cl22856
Location:129 → 149

SNARE; SNARE motif
XM_039090108.2 → XP_038946036.1 vesicle transport through interaction with t-SNAREs homolog 1A isoform X14

Conserved Domains (2) summary

pfam05008
Location:12 → 89

V-SNARE; Vesicle transport v-SNARE protein N-terminus

cl22856
Location:122 → 142

SNARE; SNARE motif
XM_039090105.2 → XP_038946033.1 vesicle transport through interaction with t-SNAREs homolog 1A isoform X13

Conserved Domains (2) summary

pfam05008
Location:12 → 89

V-SNARE; Vesicle transport v-SNARE protein N-terminus

cl22856
Location:129 → 150

SNARE; SNARE motif
XM_039090117.2 → XP_038946045.1 vesicle transport through interaction with t-SNAREs homolog 1A isoform X16

Conserved Domains (2) summary

pfam05008
Location:12 → 89

V-SNARE; Vesicle transport v-SNARE protein N-terminus

cl22856
Location:122 → 143

SNARE; SNARE motif
XM_039090101.2 → XP_038946029.1 vesicle transport through interaction with t-SNAREs homolog 1A isoform X12

Conserved Domains (2) summary

pfam05008
Location:12 → 89

V-SNARE; Vesicle transport v-SNARE protein N-terminus

cl22856
Location:129 → 149

SNARE; SNARE motif
XM_039090113.2 → XP_038946041.1 vesicle transport through interaction with t-SNAREs homolog 1A isoform X15

Conserved Domains (2) summary

pfam05008
Location:12 → 89

V-SNARE; Vesicle transport v-SNARE protein N-terminus

cl22856
Location:122 → 142

SNARE; SNARE motif