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vim vimentin [ Danio rerio (zebrafish) ]

Gene ID: 140599, updated on 9-Jun-2024

Summary

Official Symbol
vimprovided by ZNC
Official Full Name
vimentinprovided by ZNC
Primary source
ZFIN:ZDB-GENE-011212-3
See related
Ensembl:ENSDARG00000010008 AllianceGenome:ZFIN:ZDB-GENE-011212-3
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
cb28
Summary
Acts upstream of or within wound healing. Predicted to be located in intermediate filament. Is expressed in several structures, including axis; integument; midbrain neural keel; nervous system; and neural tube. Human ortholog(s) of this gene implicated in atherosclerosis; autoimmune disease (multiple); and cataract 30. Orthologous to human VIM (vimentin). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
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Genomic context

See vim in Genome Data Viewer
Location:
chromosome: 24
Exon count:
9
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 24 NC_007135.7 (32176028..32192681)
105 previous assembly GRCz10 (GCF_000002035.5) 24 NC_007135.6 (32261576..32278038)

Chromosome 24 - NC_007135.7Genomic Context describing neighboring genes Neighboring gene cubilin (intrinsic factor-cobalamin receptor) Neighboring gene tRNA aspartic acid methyltransferase 1 Neighboring gene phosphodiesterase 1C, calmodulin-dependent a Neighboring gene protein phosphatase 1 regulatory subunit 17

Genomic regions, transcripts, and products

Expression

  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables structural constituent of cytoskeleton IBA
Inferred from Biological aspect of Ancestor
more info
 
Process Evidence Code Pubs
involved_in intermediate filament organization IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within wound healing IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
is_active_in axon IBA
Inferred from Biological aspect of Ancestor
more info
 
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
 
is_active_in intermediate filament IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in intermediate filament IEA
Inferred from Electronic Annotation
more info
 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
 

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)

  1. NM_131872.2NP_571947.1  vimentin

    See identical proteins and their annotated locations for NP_571947.1

    Status: PROVISIONAL

    Source sequence(s)
    BC053115
    UniProtKB/TrEMBL
    Q9YHX5
    Related
    ENSDARP00000016261.6, ENSDART00000003745.8
    Conserved Domains (2) summary
    pfam00038
    Location:93401
    Filament; Intermediate filament protein
    pfam04732
    Location:592
    Filament_head; Intermediate filament head (DNA binding) region

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007135.7 Reference GRCz11 Primary Assembly

    Range
    32176028..32192681
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_021470110.1XP_021325785.1  vimentin isoform X1

    UniProtKB/TrEMBL
    A0A8M9PXB1
    Conserved Domains (2) summary
    pfam00038
    Location:93401
    Filament; Intermediate filament protein
    pfam04732
    Location:592
    Filament_head; Intermediate filament head (DNA binding) region