Vim MGI Mouse Gene Detail - MGI:98932

Symbol

Vim
Name

vimentin

Feature Type

protein coding gene
IDs

MGI:98932
NCBI Gene: 22352
Alliance

gene page
Transcription Start Sites

35 TSS

Sequence Map

Chr2:13579122-13587637 bp, + strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 2, 10.04 cM, cytoband A2
Mapping Data

24 experiments

SNPs within 2kb

333 from dbSNP Build 142
Strain Annotations

18
RFLP

5

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_98932	protein coding gene	Chr2:13578738-13587637 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0025357	protein coding gene	Chr2:11079884-11088791 (+)
A/J	MGP_AJ_G0025334	protein coding gene	Chr2:10661409-10670278 (+)
AKR/J	MGP_AKRJ_G0025303	protein coding gene	Chr2:10971497-10980400 (+)
BALB/cJ	MGP_BALBcJ_G0025330	protein coding gene	Chr2:10653438-10662328 (+)
C3H/HeJ	MGP_C3HHeJ_G0025090	protein coding gene	Chr2:10925044-10933930 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0025772	protein coding gene	Chr2:11383017-11391785 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0023187	protein coding gene	Chr2:10274120-10282883 (+)
CAST/EiJ	MGP_CASTEiJ_G0024553	protein coding gene	Chr2:10888010-10897800 (+)
CBA/J	MGP_CBAJ_G0025069	protein coding gene	Chr2:11865211-11874107 (+)
DBA/2J	MGP_DBA2J_G0025201	protein coding gene	Chr2:10555709-10564612 (+)
FVB/NJ	MGP_FVBNJ_G0025163	protein coding gene	Chr2:10454845-10463757 (+)
LP/J	MGP_LPJ_G0025287	protein coding gene	Chr2:10991032-10999920 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0025195	protein coding gene	Chr2:11742839-11751730 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0025830	protein coding gene	Chr2:10888267-10897164 (+)
PWK/PhJ	MGP_PWKPhJ_G0024304	protein coding gene	Chr2:10444650-10454051 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0024104	protein coding gene	Chr2:10925292-10934107 (+)
WSB/EiJ	MGP_WSBEiJ_G0024623	protein coding gene	Chr2:10976945-10985711 (+)

Human Ortholog

VIM, vimentin

Vertebrate Orthologs

4

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

VIM, vimentin
Links

HGNC:12692

NCBI Gene ID: 7431

neXtProt AC: NX_P08670

UniProt: P08670
Chr Location

10p13; chr10:17228241-17237593 (+) GRCh38

MGI Vertebrate Homology

Vim stringent orthology
1 human;1 mouse;1 rat;2 zebrafish
HCOP

vertebrate homology predictions: VIM
Gene Tree

Vim

Diseases

1 with Vim mouse models; 6 with human VIM associations

Human Disease

Mouse Models

cataract 30

IDs

View 1 model

IDs

IDs

IDs

IDs

systemic lupus erythematosus

IDs

Click on a disease name to see all genes associated with that disease.

Mutations/Alleles

1 with disease annotations

References

1 with disease annotations

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Phenotype Summary

39 phenotypes from 3 alleles in 3 genetic backgrounds
26 phenotypes from multigenic genotypes
85 phenotype references

Phenotype Overview

Blue squares indicate phenotypes directly attributed to mutations/alleles of this gene.

adipose tissue	behavior/neurological	cardiovascular system	cellular	craniofacial	digestive/alimentary system	embryo	endocrine/exocrine glands	growth/size/body	hearing/vestibular/ear	hematopoietic system	homeostasis/metabolism	integument	immune system	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	neoplasm	vision/eye

Click cells to view annotations.

All Mutations and Alleles

21
Endonuclease-mediated

8
Gene trapped

4
Targeted

8
Transgenic

1
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

40 strains or lines available
Comparison Matrix

Gene Expression + Phenotype
Recombinase Activity

Comparison Matrix Gene Expression + Recombinase Activity

Homozygous null mutants exhibit impaired performance in motor coordination tests; cerebellum shows underdeveloped/abnormal Bergman glia and stunted, poorly branched Purkinje cells. Mutants are unable to survive experimental 75% reduction of kidney mass.

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All GO Annotations

77
GO References

36

Molecular Function

carbohydrate derivative binding	cytoskeletal protein binding	DNA binding	enzyme regulator	hydrolase	ligase	lipid binding	oxidoreductase	RNA binding	signaling receptor activity	signaling receptor binding	transcription	transferase	transporter

Biological Process

carbohydrate derivative metabolism	cell differentiation	cell population proliferation	cellular component organization	DNA-templated transcription	establishment of localization	homeostatic process	immune system process	lipid metabolic process	programmed cell death	protein metabolic process	response to stimulus	signaling	system development

Cellular Component

cell projection	cytoplasmic vesicle	cytoskeleton	cytosol	endoplasmic reticulum	endosome	extracellular region	Golgi apparatus	mitochondrion	membraneless organelle	nucleus	organelle envelope	organelle lumen	plasma membrane	protein-containing complex	synapse	vacuole

Click cells to view annotations.

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Expression Overview

GXD's primary emphasis is on endogenous gene expression during development. Click on grid cells to view annotations.

Blue cells = expressed in wild-type.
Gray triangles = other expression annotations only
(e.g. absence of expression or data from mutants).

early conceptus	embryo ectoderm	embryo endoderm	embryo mesoderm	embryo mesenchyme	extraembryonic component	alimentary system	auditory system	branchial arches	cardiovascular system	connective tissue	endocrine system	exocrine system	hemolymphoid system	integumental system	limbs	liver and biliary system	musculoskeletal system	nervous system	olfactory system	reproductive system	respiratory system	urinary system	visual system

Click cells to view annotations.

Assay Results

1371
Tissues

409
cDNA Data

717
Literature Summary

444

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GENSAT

GEO

Expression Atlas
Other Vertebrate Links

GEISHA VIM

Xenbase vim, vim.2

ZFIN vim

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All Sequences

105
RefSeq

2
UniProt

11
CCDS

CCDS15696.1

Ensembl

ENSMUSG00000026728 (Evidence)
NCBI Gene

22352

			Length	Strain/Species	Flank
genomic	22352	NCBI Gene Model \| MGI Sequence Detail	8516	C57BL/6J	± kb
transcript	NM_011701	RefSeq \| MGI Sequence Detail	1834	ZRU/MplStud
polypeptide	P20152	UniProt \| EBI \| MGI Sequence Detail	466	Not Applicable

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UniProt

11 Sequences
Protein Ontology

PR:000017298 vimentin

(term hierarchy)
InterPro Domains

IPR006821 Intermediate filament head, DNA-binding domain

IPR018039 Intermediate filament protein, conserved site

IPR039008 Intermediate filament, rod domain

IPR050405 Intermediate filament structural protein
GlyGen

P20152 14 sites, 1 N-linked glycan (1 site), 1 O-linked glycan (11 sites)

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All nucleic 746

Genomic 3

cDNA 722

Primer pair 15

Other 6

Microarray probesets 5

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MGD-MRK-15395

Summaries

All 656

Developmental Gene Expression 444

Diseases 1

Gene Ontology 36

Phenotypes 85
Earliest

J:29340 Jackson BW, et al., Formation of cytoskeletal elements during mouse embryogenesis. Intermediate filaments of the cytokeratin type and desmosomes in preimplantation embryos. Differentiation. 1980;17(3):161-79
Latest

J:354227 Barao S, et al., Conserved transcriptional regulation by BRN1 and BRN2 in neocortical progenitors drives mammalian neural specification and neocortical expansion. Nat Commun. 2024 Sep 14;15(1):8043

TSS for Vim:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr16187	Chr2:13578491-13578521 (+)	-616 bp
Tssr16188	Chr2:13578817-13578839 (+)	-294 bp
Tssr16189	Chr2:13578843-13578886 (+)	-257 bp
Tssr16190	Chr2:13578905-13578925 (+)	-207 bp
Tssr16191	Chr2:13579110-13579129 (+)	-2 bp
Tssr16192	Chr2:13579975-13579988 (+)	860 bp
Tssr16193	Chr2:13580162-13580171 (+)	1,045 bp
Tssr16194	Chr2:13580328-13580339 (+)	1,212 bp
Tssr16195	Chr2:13580344-13580368 (+)	1,234 bp
Tssr16196	Chr2:13580374-13580391 (+)	1,261 bp
Tssr16197	Chr2:13583214-13583275 (+)	4,123 bp
Tssr16198	Chr2:13583437-13583482 (+)	4,338 bp
Tssr16199	Chr2:13583534-13583545 (+)	4,418 bp
Tssr16200	Chr2:13583557-13583569 (+)	4,441 bp
Tssr16201	Chr2:13583576-13583589 (+)	4,461 bp
Tssr16202	Chr2:13583648-13583661 (+)	4,533 bp
Tssr16203	Chr2:13583725-13583736 (+)	4,609 bp
Tssr16204	Chr2:13583840-13583864 (+)	4,730 bp
Tssr16205	Chr2:13583958-13583971 (+)	4,843 bp
Tssr16206	Chr2:13584222-13584325 (+)	5,152 bp
Tssr16207	Chr2:13584377-13584390 (+)	5,262 bp
Tssr16208	Chr2:13584821-13584840 (+)	5,709 bp
Tssr16209	Chr2:13584841-13584906 (+)	5,752 bp
Tssr16210	Chr2:13584914-13584926 (+)	5,798 bp
Tssr16211	Chr2:13584932-13584967 (+)	5,828 bp
Tssr16212	Chr2:13584986-13585007 (+)	5,875 bp
Tssr16213	Chr2:13585441-13585467 (+)	6,332 bp
Tssr16214	Chr2:13585490-13585500 (+)	6,373 bp
Tssr16215	Chr2:13585519-13585559 (+)	6,417 bp
Tssr16216	Chr2:13586410-13586441 (+)	7,304 bp
Tssr16217	Chr2:13586448-13586459 (+)	7,332 bp
Tssr16218	Chr2:13587273-13587353 (+)	8,191 bp
Tssr16219	Chr2:13587421-13587437 (+)	8,307 bp
Tssr16220	Chr2:13587440-13587489 (+)	8,343 bp
Tssr16221	Chr2:13587581-13587601 (+)	8,469 bp

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
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