Vti1b vesicle transport through interaction with t-SNAREs 1B [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Vti1bprovided by RGD
Official Full Name: vesicle transport through interaction with t-SNAREs 1Bprovided by RGD
Primary source: RGD:2323682
See related: EnsemblRapid:ENSRNOG00000060436 AllianceGenome:RGD:2323682
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Vti1l1; Vti1-rp1; RGD1560475
Summary: Predicted to enable SNAP receptor activity; SNARE binding activity; and chloride channel inhibitor activity. Predicted to be involved in several processes, including Golgi vesicle transport; regulation of protein localization to plasma membrane; and retrograde transport, endosome to Golgi. Located in neuronal cell body and synaptic vesicle. Part of SNARE complex. Is active in presynaptic endosome membrane. Orthologous to human VTI1B (vesicle transport through interaction with t-SNAREs 1B). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Kidney (RPKM 241.7), Brain (RPKM 222.2) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 6q24

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	6	NC_086024.1 (103694342..103709544, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	6	NC_051341.1 (97957700..97976491, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	6	NC_005105.4 (102340261..102353612, complement)

Chromosome 6 - NC_086024.1 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 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?

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH138374 (e-PCR)
- UniSTS:220461

BF386764 (e-PCR)
- UniSTS:243835

RH141711 (e-PCR)
- UniSTS:223704

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables SNAP receptor activity	IBA Inferred from Biological aspect of Ancestor more info
enables SNARE binding	IBA Inferred from Biological aspect of Ancestor more info
enables SNARE binding	IEA Inferred from Electronic Annotation more info
enables SNARE binding	ISO Inferred from Sequence Orthology more info
enables chloride channel inhibitor activity	IEA Inferred from Electronic Annotation more info
enables chloride channel inhibitor activity	ISO Inferred from Sequence Orthology 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
NOT involved_in autophagosome maturation	ISO Inferred from Sequence Orthology more info
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 regulation of protein localization to plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of protein localization to plasma membrane	IEA Inferred from Electronic Annotation more info
involved_in regulation of protein localization to plasma membrane	ISO Inferred from Sequence Orthology more info
involved_in retrograde transport, endosome to Golgi	IBA Inferred from Biological aspect of Ancestor more info
involved_in vesicle fusion with Golgi apparatus	IBA Inferred from Biological aspect of Ancestor more info
involved_in vesicle-mediated transport	IEA Inferred from Electronic Annotation 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	IEA Inferred from Electronic Annotation more info
located_in Golgi apparatus	ISO Inferred from Sequence Orthology 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 cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in early endosome membrane	IEA Inferred from Electronic Annotation more info
located_in early endosome membrane	ISO Inferred from Sequence Orthology more info
located_in endomembrane system	IEA Inferred from Electronic Annotation more info
is_active_in endoplasmic reticulum membrane	IBA Inferred from Biological aspect of Ancestor more info
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 late endosome membrane	IEA Inferred from Electronic Annotation more info
located_in late endosome membrane	ISO Inferred from Sequence Orthology more info
located_in late endosome membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in lysosomal membrane	IEA Inferred from Electronic Annotation more info
located_in lysosomal membrane	ISO Inferred from Sequence Orthology more info
located_in lysosomal membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in membrane	ISO Inferred from Sequence Orthology more info
located_in neuronal cell body	IDA Inferred from Direct Assay more info	PubMed
located_in perinuclear region of cytoplasm	IEA Inferred from Electronic Annotation more info
located_in perinuclear region of cytoplasm	ISO Inferred from Sequence Orthology more info
is_active_in presynaptic endosome membrane	IDA Inferred from Direct Assay more info	PubMed
is_active_in presynaptic endosome membrane	NAS Non-traceable Author Statement more info	PubMed
located_in recycling endosome	ISO Inferred from Sequence Orthology more info
located_in recycling endosome membrane	IEA Inferred from Electronic Annotation more info
located_in recycling endosome membrane	ISO Inferred from Sequence Orthology more info
located_in synaptic vesicle	IDA Inferred from Direct Assay more info	PubMed
located_in vesicle	ISO Inferred from Sequence Orthology more info

General protein information

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

Names: Vesicle transport v-SNARE protein Vti1-like 1

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_001377194.1 → NP_001364123.1 vesicle transport through interaction with t-SNAREs homolog 1B

Status: VALIDATED

Source sequence(s)

JAXUCZ010000006

UniProtKB/TrEMBL

A0A8I6GJ34, F1LNC4

Conserved Domains (2) summary

cd15890
Location:136 → 197

SNARE_Vti1b; SNARE motif of Vti1b-like

pfam05008
Location:18 → 96

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_086024.1 Reference GRCr8

Range

103694342..103709544 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039111590.2 → XP_038967518.1 vesicle transport through interaction with t-SNAREs homolog 1B isoform X1

UniProtKB/Swiss-Prot

P58200

UniProtKB/TrEMBL

A6HCG5

Related

ENSRNOP00000070613.2, ENSRNOT00000090407.3

Conserved Domains (2) summary

cd15890
Location:136 → 197

SNARE_Vti1b; SNARE motif of Vti1b-like

pfam05008
Location:18 → 96

V-SNARE; Vesicle transport v-SNARE protein N-terminus
XM_039111592.2 → XP_038967520.1 vesicle transport through interaction with t-SNAREs homolog 1B isoform X2

Conserved Domains (2) summary

cd15890
Location:75 → 136

SNARE_Vti1b; SNARE motif of Vti1b-like

pfam05008
Location:1 → 35

V-SNARE; Vesicle transport v-SNARE protein N-terminus
XM_039111591.2 → XP_038967519.1 vesicle transport through interaction with t-SNAREs homolog 1B isoform X2

Conserved Domains (2) summary

cd15890
Location:75 → 136

SNARE_Vti1b; SNARE motif of Vti1b-like

pfam05008
Location:1 → 35

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