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Category Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21

GIFtS
-

VIM Gene

protein-coding GIFtS: 71
GCID: GC10P017270

vimentin

Explore 376 diseases affiliated with
VIM via

MalaCards

our new
Human Malady Compendium

(According to ¹HGNC, ²Entrez Gene,
³UniProtKB/Swiss-Prot, ⁴UniProtKB/TrEMBL, ⁵OMIM, ⁶GeneLoc, ⁷Ensembl, ⁸DME, ⁹miRBase, and/or ¹⁰fRNAdb)
About This Section

Aliases
Vimentin¹

External Ids:	HGNC: 12692¹	Entrez Gene: 7431²	Ensembl: ENSG00000026025⁷	OMIM: 193060⁵	UniProtKB: P08670³

Export aliases for VIM gene to outside databases

Previous GC identifers: GC10P017253 GC10P017421 GC10P017275 GC10P017310

(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

Entrez Gene summary for VIM:

This gene encodes a member of the intermediate filament family. Intermediate filamentents, along with microtubules and

actin microfilaments, make up the cytoskeleton. The protein encoded by this gene is responsible for maintaining cell

shape, integrity of the cytoplasm, and stabilizing cytoskeletal interactions. It is also involved in the immune

response, and controls the transport of low-density lipoprotein (LDL)-derived cholesterol from a lysosome to the site

of esterification. It functions as an organizer of a number of critical proteins involved in attachment, migration,

and cell signaling. Mutations in this gene causes a dominant, pulverulent cataract.(provided by RefSeq, Jun 2009)

UniProtKB/Swiss-Prot: VIME_HUMAN, P08670

Function: Vimentins are class-III intermediate filaments found in various non-epithelial cells, especially mesenchymal

cells. Vimentin is attached to the nucleus, endoplasmic reticulum, and mitochondria, either laterally or terminally

Function: Involved with LARP6 in the stabilization of type I collagen mRNAs for CO1A1 and CO1A2

Gene Wiki entry for VIM (Vimentin)

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section

RefSeq DNA sequence:

NC_000010.10 NC_018921.1 NT_008705.16

Regulatory elements:

SABiosciences Regulatory transcription factor binding sites in the VIM gene promoter:
AREB6 Spz1 p53 MyoD
Other transcription factors

SwitchGear Promoter luciferase reporter plasmids (see all 2): VIM promoter sequence

Search SABiosciences Chromatin IP Primers for VIM

Epigenetics:

QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat VIM

Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 10p13 Ensembl cytogenetic band: 10p13 HGNC cytogenetic band: 10p13

VIM Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
VIM gene location

GeneLoc information about chromosome 10 GeneLoc Exon Structure

GeneLoc location for GC10P017270: view genomic region (about GC identifiers)

Start:	17,270,258 bp from pter	End:	17,279,592 bp from pter
Size:	9,335 bases	Orientation:	plus strand

(According to ¹UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to ²PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section

UniProtKB/Swiss-Prot: VIME_HUMAN, P08670 (See protein sequence)

Recommended Name: Vimentin

Size: 466 amino acids; 53652 Da

Subunit: Homopolymer assembled from elementary dimers. Interacts with HCV core protein. Interacts with LGSN and SYNM.

Interacts (via rod region) with PLEC (via CH 1 domain) (By similarity). Interacts with SLC6A4. Interacts with STK33.

Interacts with LARP6. Interacts with RAB8B (By similarity)

Subcellular location: Cytoplasm

Sequence caution: Sequence=BAB71275.1; Type=Miscellaneous discrepancy; Note=Intron retention;

6/10 PDB 3D structures from and Proteopedia for VIM (see all 10):

1GK4 (3D)

1GK6 (3D)

1GK7 (3D)

3G1E (3D)

3KLT (3D)

3S4R (3D)

Secondary accessions: B0YJC2 D3DRU4 Q15867 Q15868 Q15869 Q548L2 Q6LER9 Q8N850 Q96ML2 Q9NTM3

Explore the universe of human proteins at neXtProt for VIM: NX_P08670

Post-translational modifications:

Filament disassembly during mitosis is promoted by phosphorylation at Ser-55 as well as by nestin (By similarity). One

of the most prominent phosphoproteins in various cells of mesenchymal origin. Phosphorylation is enhanced during cell

division, at which time vimentin filaments are significantly reorganized. Phosphorylation by PKN1 inhibits the

formation of filaments. Phosphorylated at Ser-56 by CDK5 during neutrophil secretion in the cytoplasm. Phosphorylated

by STK33¹

View modification sites using PhosphoSitePlus²

View neXtProt modification sites for NX_P08670

VIM Protein expression data from MOPED and PaxDb: About this image

REFSEQ proteins: NP_003371.2

ENSEMBL proteins:

ENSP00000224237 ENSP00000435613 ENSP00000431702 ENSP00000391842 ENSP00000446007

Reactome Protein details: P08670
Human Recombinant Protein Products:

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	Novus Biologicals VIM Proteins Novus Biologicals VIM Lysates
	Browse Sino Biological Recombinant Proteins
	ProSpec Recombinant Protein for VIM
	Uscn Proteins for VIM

Gene Ontology (GO): 5/11 cellular component terms (GO ID links to tree view) (see all 11): About this table

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0005737	cytoplasm	IDA	9150946
GO:0005777	peroxisome	IDA	17881773
GO:0005829	cytosol	TAS	--
GO:0005856	cytoskeleton	TAS	16130169
GO:0005882	intermediate filament	IDA	11889032

VIM for ontologies About GeneDecksing

VIM Antibody Products:

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	Novus Biologicals VIM Antibodies
	Abcam antibodies for VIM
	Uscn Antibodies for VIM
	ThermoFisher Antibody for VIM

Assay Products for VIM:

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	GenScript Custom Assay Services for VIM
	Cell Signaling Technology (CST) Sandwich ELISA Kits for VIM (vimentin)
	Browse Enzo Life Sciences for kits & assays
	Uscn ELISAs and CLIAs for VIM

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section

VIM for domains About GeneDecksing

4 InterPro domains/families:

IPR006821 Intermed_filament_DNA-bd

IPR018039 Intermediate_filament_CS

IPR001664 IF

IPR016044 F

Graphical View of Domain Structure for InterPro Entry P08670

ProtoNet protein and cluster: P08670

1 Blocks protein family: IPB001664 Intermediate filament protein

UniProtKB/Swiss-Prot: VIME_HUMAN, P08670

Domain: The central alpha-helical coiled-coil rod region mediates elementary homodimerization

Similarity: Belongs to the intermediate filament family

(According to ¹UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or ²DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
bound targets from SABiosciences, miRNA Gene Targets from miRTarBase shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
About This Section

Function Summary:

UniProtKB/Swiss-Prot: VIME_HUMAN, P08670

Function: Vimentins are class-III intermediate filaments found in various non-epithelial cells, especially mesenchymal

cells. Vimentin is attached to the nucleus, endoplasmic reticulum, and mitochondria, either laterally or terminally

Function: Involved with LARP6 in the stabilization of type I collagen mRNAs for CO1A1 and CO1A2

Genatlas biochemistry entry for VIM:

vimentin,intermediate filament protein,expressed in cells of mesenchymal origin,regulated by an antisilencer element

miRNA Products:		miRTarBase miRNAs that target VIM: hsa-mir-17 (MIRT005028), hsa-mir-124 (MIRT004724)

		OriGene 3'-UTR Clone: VIM Browse MicroRNA Expression Plasmids
		QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat VIM
		8/17 QIAGEN miScript miRNA Assays for microRNAs that regulate VIM (see all 17):
		hsa-miR-320a hsa-miR-875-3p hsa-miR-509-5p hsa-miR-488 hsa-miR-548a-3p hsa-miR-124 hsa-miR-548x hsa-miR-506

		SwitchGear 3'UTR luciferase reporter plasmid: VIM 3' UTR sequence

Inhib. RNA Products:		Browse for Gene Knock-down Tools from EMD Millipore
		OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for VIM (see all 7) OriGene shRNA RFP: VIM OriGene siRNA: VIM
		QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat VIM

Gene Editing
Products:

DNA2.0 Custom Protein Engineering Service for VIM

Clone Products:		Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore
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		GenScript: all cDNA clones in your preferred vector: VIM (NM_003380)
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		Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat VIM

Cell Line Products:		GenScript Custom overexpressing Cell Line Services for VIM
		Search LifeMap BioReagents cell lines for VIM

In Situ Assay
Products:

Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for VIM

Gene Ontology (GO): 5/8 molecular function terms (GO ID links to tree view) (see all 8): About this table

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0005198	structural molecule activity	--	--
GO:0005200	structural constituent of cytoskeleton	IDA	11889032
GO:0005212	structural constituent of eye lens	IEA	--
GO:0005515	protein binding	IPI	--
GO:0008022	protein C-terminus binding	IPI	19270731

VIM for ontologies About GeneDecksing

5 GenomeRNAi human phenotypes for VIM:

Decreased Hepatitis C virus re	Decreased focal adhesion (FA)	Decreased viability with pacli	Increased gamma-H2AX phosphory
Weaker migration

Animal Models:
Mouse knock-out Vim^tm2Cba for VIM
13 MGI mutant phenotypes (inferred from 2 alleles) (MGI details for Vim):

behavior/neurological	cardiovascular system	cellular	embryogenesis	growth/size
homeostasis/metabolism	immune system	mortality/aging	muscle	nervous system
reproductive system	respiratory system	vision/eye

VIM for phenotypes About GeneDecksing

(Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to ¹UniProtKB, ²MINT, ³I2D, and/or ⁴STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene).
About This Section

Unified GeneCards pathways - 5/14 super-pathways (see all 14) About this table

See pathways by source

Super-pathway

contained gene-specific pathways

Apoptotic cleavage of cellular proteins

	Apoptotic cleavage of cellular proteins	1.00			Caspase-mediated cleavage of cytoskeletal proteins	0.32
	Apoptotic execution phase	0.73

Cytoskeleton remodeling Neurofilaments

	Cytoskeleton remodeling Neurofilaments	1.00			Cytoplasmic microtubules	0.32
	Cytoskeleton remodeling_Neurofilaments	0.91

Striated Muscle Contraction

	Striated Muscle Contraction	1.00			Muscle contraction	0.65
	Striated Muscle Contraction	0.87

Cytoskeleton remodeling Keratin filaments

Cytoskeleton remodeling Keratin filaments

1.00

Cytoskeleton remodeling_Keratin filaments

0.91

Cell adhesion Endothelial cell contacts by junctional mechanisms

Cell adhesion Endothelial cell contacts by junctional mechanisms

1.00

Cell adhesion_Endothelial cell contacts by junctional mechanisms

0.97

Pathway sources
See GeneCards unified pathways
Show all pathways

4 EMD Millipore Pathways for VIM

	Cytoskeleton remodeling Neurofilaments
	Cell adhesion Endothelial cell contacts by junctional mechanisms
	Cytoplasmic microtubules
	Cytoskeleton remodeling Keratin filaments

4 Downloadable PowerPoint Slides of QIAGEN Pathway Central Maps for VIM

	ILK Signaling
	Rho Family GTPases
	14-3-3 Induced Intracellular Signaling
	WNT Signaling

1 Cell Signaling Technology (CST) Pathway for VIM

Cytoskeletal Signaling

3 GeneGo (Thomson Reuters) Pathways for VIM

	Cytoskeleton remodeling Keratin filaments
	Cell adhesion Endothelial cell contacts by junctional mechanisms
	Cytoskeleton remodeling Neurofilaments

5 BioSystems Pathways for VIM

	Alpha6-Beta4 Integrin Signaling Pathway
	TCR Signaling Pathway
	Caspase cascade in apoptosis
	Striated Muscle Contraction
	Aurora B signaling

5/6 Reactome Pathways for VIM (see all 6)

	Apoptotic execution phase
	Muscle contraction
	Apoptotic cleavage of cellular proteins
	Caspase-mediated cleavage of cytoskeletal proteins
	Apoptosis

VIM for pathways About GeneDecksing

Interactions:

SABiosciences Gene Network Central^TM Interacting Genes and Proteins Network for VIM

STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

5/1074 Interacting proteins for VIM (P08670^{1, 2, 3} ENSP00000224237⁴) via UniProtKB, MINT, STRING, and/or I2D (see all 1074)

Interactant		Interaction Details
GeneCard	External ID(s)	Interaction Details
KAT7	O95251¹^,²^,³, ENSP00000259021⁴	EBI-3442369,EBI-473199 MINT-3980250 MINT-64943 MINT-66105 MINT-8277050 I2D: score=7 STRING: ENSP00000259021
CRMP1	Q14194¹^,²^,³, ENSP00000321606⁴	EBI-3442369,EBI-473101 MINT-3980404 MINT-8277004 MINT-3981786 I2D: score=3 STRING: ENSP00000321606
CHD3	Q12873²^,³, ENSP00000369716⁴	MINT-3979536 MINT-7945693 MINT-3980267 I2D: score=3 STRING: ENSP00000369716
SIRT6	Q8N6T7²^,³, ENSP00000337332⁴	MINT-64930 MINT-8270737 I2D: score=4 STRING: ENSP00000337332
YWHAZ	P63104²^,³, ENSP00000309503⁴	MINT-3297793 MINT-7899812 I2D: score=4 STRING: ENSP00000309503

About this table

Gene Ontology (GO): 5/12 biological process terms (GO ID links to tree view) (see all 12): About this table

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0006915	apoptotic process	TAS	--
GO:0006921	cellular component disassembly involved in execution phase of apoptosis	TAS	--
GO:0006928	cellular component movement	TAS	16130169
GO:0010977	negative regulation of neuron projection development	IEA	--
GO:0014002	astrocyte development	IEA	--

VIM for ontologies About GeneDecksing

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
About This Section

VIM for compounds About GeneDecksing

Browse Small Molecules at EMD Millipore

Browse drugs & compounds from Enzo Life Sciences

Browse Tocris compounds for VIM

1 HMDB Compound for VIM About this table

Compound	Synonyms	CAS #	PubMed Ids
Carnosine	Beta-Alanyl-L-histidine (see all 14)	305-84-0	17522447

10/156 Novoseek chemical compound relationships for VIM gene (see all 156) About this table

Compound	-log (P-Val)	Hits	PubMed IDs for Articles with Shared Sentences (# sentences)
b 723	71.5	37	7868083 (3), 12883236 (3), 12046609 (2), 1376598 (1) (see all 32)
mucicarmine	71.4	8	16334025 (1), 11858401 (1), 10405240 (1), 8776426 (1) (see all 8)
paraffin	67.4	66	1693875 (1), 1699393 (1), 2029088 (1), 7524376 (1) (see all 62)
reticulin	63.7	13	7792953 (1), 11858401 (1), 16713546 (1), 8340101 (1) (see all 11)
progesterone	62.7	184	19269675 (4), 12090595 (2), 15088145 (2), 11866908 (2) (see all 99)
estrogen	58.4	180	19269675 (4), 12004356 (3), 15088145 (2), 2153347 (2) (see all 99)
hematoxylin	56.5	24	7512798 (1), 15049161 (1), 10767834 (1), 16949932 (1) (see all 23)
matrigel	53.1	9	7528440 (1), 19397698 (1), 11688960 (1), 1793731 (1) (see all 8)
cp-49	47.7	8	7615661 (3), 7781747 (2), 10627819 (1), 17927688 (1) (see all 5)
s 100	47.4	7	8878020 (2), 11253140 (1), 11253120 (1), 7706516 (1) (see all 6)

Search CenterWatch for drugs/clinical trials and news about VIM / VIME

(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from EMD Millipore,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
About This Section

REFSEQ mRNAs for VIM gene:

NM_003380.3

Unigene Clusters for VIM:

Vimentin

Hs.455493 [show with all ESTs], Hs.691131 [show with all ESTs]

Unigene Representative Sequences: NM_003380, BM458017

10 Ensembl transcripts including schematic representations, and UCSC links where relevant:

ENST00000478317 ENST00000478746 ENST00000497849 ENST00000224237 ENST00000487938

ENST00000485947 ENST00000469543 ENST00000421459 ENST00000495528 ENST00000544301(uc001iou.2)

miRNA Products:		OriGene 3'-UTR Clone: VIM Browse OriGene MicroRNA Expression Plasmids
		QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat VIM
		8/17 QIAGEN miScript miRNA Assays for microRNAs that regulate VIM (see all 17):
		hsa-miR-320a hsa-miR-875-3p hsa-miR-509-5p hsa-miR-488 hsa-miR-548a-3p hsa-miR-124 hsa-miR-548x hsa-miR-506

		SwitchGear 3'UTR luciferase reporter plasmid: VIM 3' UTR sequence

Inhib. RNA Products:		Browse for Gene Knock-down Tools from EMD Millipore
		OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for VIM (see all 7) OriGene shRNA RFP: VIM OriGene siRNA: VIM
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Clone Products:		OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for VIM (see all 3) OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for VIM OriGene custom cloning services � gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
		GenScript: all cDNA clones in your preferred vector: VIM (NM_003380)
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		QIAGEN QuantiFast Probe-based Assays in human, mouse, rat VIM

Additional cDNA sequence: X16478.1

24/187 DOTS entries (see all 187):

DT.100736301 DT.99925994 DT.91733250 DT.95153735 DT.100736262 DT.100736286 DT.97861183 DT.102844050

DT.100894798 DT.100736247 DT.100736370 DT.100736347 DT.100736249 DT.92344625 DT.99926544 DT.85103186

DT.95153671 DT.100736367 DT.97854035 DT.121233616 DT.121233524 DT.100736330 DT.92407751 DT.100736329

24/4539 AceView cDNA sequences (see all 4539):

BQ435084 BQ183072 BU617443 BE296541 CB130545 BQ952257 AI826031 BM741719

BF086481 CA397709 BQ877938 BU178982 BU149209 BQ425233 BG165527 BQ773378

BM763352 BQ888990 BI861021 BU740068 CR608699 BM463012 BI871091 BQ917299

GeneLoc Exon Structure

5 Alternative Splicing Database (ASD) splice patterns (SP) for VIM About this scheme

ExUns:	1	^	2	^	3a	·	3b	·	3c	^	4a	·	4b	^	5	^	6	^	7	^	8a	·	8b	^	9	^	10	^	11
SP1:			-								-												-
SP2:
SP3:
SP4:											-		-
SP5:

ECgene alternative splicing isoforms for VIM

(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section

VIM expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: TCCAAATCGA

About this image

VIM expression in embryonic tissues and stem cells

Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine About this table

10/65 LifeMap In Vivo Development Anatomical Compartments/Cells (see all 65)

Tissue

Anatomical Compartment

Cell

Category (developmental path)

Heart

Epicardium

Epicardium-Derived Cells

Selective marker (cell-identifying gene)

Epicardium

Epicardium

Cervical Intervertebral Disc

Intervertebral Disc Nucleus Pulposus Cells

Cartilage

Lumbar Intervertebral Disc

Intervertebral Disc Nucleus Pulposus Cells

Cartilage

Sacral Intervertebral Disc

Intervertebral Disc Nucleus Pulposus Cells

Cartilage

Thoracic Intervertebral Disc

Intervertebral Disc Nucleus Pulposus Cells

Cartilage

Heart

Epicardium

Epicardial Progenitors Cells

Epicardium

Lateral Plate Mesoderm

Splanchnic Mesoderm

Pericytes

Limb

Forelimb Dorsal Muscles

Mononuclear Myocytes

Skeletal Muscle

Limb

Forelimb Dorsal Muscles

Multinuclear Myocytes

Skeletal Muscle

Expression:

Positive

Negative

Selective marker

Experimental details:

Curated

Microarrays

In-situ hybridization

Stem Cell Differentiation: 7 LifeMap Cells

Name

Category

mK3 (Cell line)

Kidney

mK4 (Cell line)

Kidney

Mouse ureteric bud cells (CMUB-1) (Cell line)

Kidney

Lateral plate mesoderm-derived smooth muscle cells (Generation of human ...)

Paraxial mesoderm-derived smooth muscle cells (Generation of human ...)

Lung epithelial-like cells (Derivation of lung e...)

Midbrain neural progenitor-like cells (Differentiation of h...)

See VIM Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for VIM

SOURCE GeneReport for Unigene clusters: Hs.455493 Hs.691131

UniProtKB/Swiss-Prot: VIME_HUMAN, P08670

Tissue specificity: Highly expressed in fibroblasts, some expression in T- and B-lymphocytes, and little or no

expression in Burkitt's lymphoma cell lines. Expressed in many hormone-independent mammary carcinoma cell lines

SABiosciences Expression via Pathway-Focused PCR Arrays including VIM (see all 8):

Nephrotoxicity in human mouse rat

Oxidative Stress in human mouse rat

Cell Motility in human mouse rat

Cardiotoxicity in human mouse rat

Mesenchymal Stem Cell in human mouse rat

Primer Products:		OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for VIM Browse OriGene validated miRNA SYBR primer pairs
		SABiosciences RT² qPCR Primer Assay in human, mouse, rat VIM
		QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat VIM
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In Situ
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(Orthologs according to ^1,2HomoloGene (²older version, for species not in ¹newer version), ³euGenes, ⁴SGD , ⁵MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or ⁶Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
About This Section

This gene was present in the common ancestor of animals.

Orthologs for VIM gene from 5/17 species (see all 17) About this table

Organism	Taxonomic classification	Gene	Description	Human Similarity	Orthology Type	Details
chicken (Gallus gallus)	Aves	VIM¹	vimentin	82.61(n) 87.61(a)		420519 NM_001048076.1 NP_001041541.1
lizard (Anolis carolinensis)	Reptilia	-- VIM⁶ (see all 3)	--	81(a) (see all 3)	possible ortholog 1 ↔ 1 (see all 3)	AAWZ02039762(4434-6932) 6(18298956-18317294)
African clawed frog (Xenopus laevis)	Amphibia	vim1²	vimentin 1	77.54(n)		BC045052.1
zebrafish (Danio rerio)	Actinopterygii	AF069994.1²	--	77.47(n)		140599 AF069994.1
worm (Caenorhabditis elegans)	Secernentea	ifp-1⁶ ifc-2⁶ (see all 12)	Intermediate filament protein ifc-2 (see all 12)	7(a) 6(a) (see all 12)	possible ortholog possible ortholog (see all 12)	X(9675786-9680111) X(642160-654902)

ENSEMBL Gene Tree for VIM (if available)
TreeFam Gene Tree for VIM (if available)

(Paralogs according to ¹HomoloGene,
²Ensembl, and ³SIMAP, Pseudogenes according to ⁴Pseudogene.org Build 68)
About This Section

Paralogs for VIM gene

LMNB1² SYNM² INA² LMNA² NES² PRPH² DES² NEFM²

LMNB2² NEFH² GFAP²

18/67 SIMAP similar genes for VIM using alignment to 4 protein entries: VIME_HUMAN (see all proteins) (see all similar genes):

DES tmp_locus_29 PRPH KRTHB6 GFAP DKFZp761K0922

NEFM INA NEFL KRT4 KRTHB1 KRT1

KRT5 keratin KRT76 KRT79 KRT3 KRT6A

VIM for paralogs About GeneDecksing

1 Pseudogenes.org Pseudogene for VIM
PGOHUM00000243352

(SNPs/Variants according to the ¹NCBI SNP Database, ²Ensembl, ³PupaSUITE, UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
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SNP ID	Valid	Clinical significance	Chr 10 pos	Sequence	#	AA Chg	Type	More	#	Allele freq	Pop	Total sample	More
Genomic Data					Transcription Related Data				Allele Frequencies
				--	--	--		--	--
rs121917775^1,2	C	pathogenic	44378850(+)	`TCTACA/GAGGAG`	2	K E	mis¹		0	--	--	--	--
rs1899900^1,2	C	--	17182445(-)	`CCCAAG/AAGCAT`	2	--	us2k¹		1		MN	184
rs57303604^1,2	C,	--	17182677(+)	`CAGTAC/ACCCCT`	2	--	us2k¹		2		WA	120
rs6602186^1,2	C,F,A,H,	--	17183304(+)	`AGTTCT/GATTTT`	2	--	us2k¹		21		NA NS EA WA CSA	2061
rs80339700^1,2	F,	--	17183639(+)	`TAAGTT/CGGTAG`	2	--	ut5¹ us2k¹		1		WA	118
rs41289325^1,2	C,F,	--	17183897(+)	`ATCTCC/TCCGCC`	2	--	us2k¹ int¹		6		NA WA CSA	127
rs45511801^1,2	F	--	17183934(+)	`GGCCGG/AAGCAG`	2	--	int¹ us2k¹		1		NS	40
rs11545548^1,2	C,F,H	--	17184881(+)	`CGGGGC/TGCGGC`	2	A V	mis¹ ese³		3		NS NA	462
rs1042003^1,2	C	--	17185089(+)	`CGCCTG/AGGGGA`	2	/L	syn¹		1		MN	184
rs11545551^1,2	C	--	17185205(+)	`GCGCCC/TCCGGG`	2	P L	mis¹		0	--	--	--	--

HapMap Linkage Disequilibrium report for VIM (17270258 - 17279592 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV) variations for VIM: --
Human Gene Mutation Database (HGMD): VIM

Locus Specific Mutation Databases (LSDB): VIM

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(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
About This Section

VIM for disorders           About GeneDecksing

OMIM gene information: 193060    OMIM disorders: --

20/376 diseases for VIM (see all 376):    About MalaCards

cataract, pulverulent, autosomal dominant malignant peripheral nerve sheath tumor polymorphous low-grade adenocarcinoma sex cord-gonadal stromal tumor

brooke-spiegler syndrome cataract von hippel-lindau disease cataract, pulverulent

mesoblastic nephroma persistent hyperinsulinemic hypoglycemia of infancy tay-sachs disease atypical teratoid rhabdoid tumor

fibrous histiocytoma infantile digital fibromatosis giant-cell fibroblastoma desmoplastic small round cell tumor

lymphoepithelioma-like carcinoma dermatofibrosarcoma protuberans alveolar soft part sarcoma malignant fibrous histiocytoma

20/61 diseases from the University of Copenhagen DISEASES database for VIM (see all 61):

Carcinoma Sarcoma Essential tremor Mesenchymal cell neoplasm

Leiomyosarcoma Carcinosarcoma Meningioma Hemangiopericytoma

Malignant fibroxanthoma Germ cell cancer Benign mesothelioma Myoepithelioma

Chordoma Glomus tumor Rhabdomyosarcoma Neurilemmoma

Synovial sarcoma Granular cell tumor Fibrosarcoma Renal cell carcinoma

10/94 Novoseek disease relationships for VIM gene (see all 94) About this table

Disease	-log (P-Val)	Hits	PubMed IDs for Articles with Shared Sentences (# sentences)
tumors	86.2	1864	2153347 (5), 7518849 (5), 18632620 (4), 2173410 (4) (see all 99)
rhabdoid tumor	83.6	9	15471430 (1), 19432675 (1), 11557780 (1), 8781656 (1) (see all 9)
myoepithelioma	83.4	11	1694334 (1), 15619979 (1), 15717758 (1), 16099771 (1) (see all 10)
carcinosarcoma	82	8	1696005 (1), 18281472 (1), 15132766 (1), 1283991 (1) (see all 8)
sarcoma epithelioid	81	13	7679559 (3), 1689556 (1), 19997734 (1), 12946229 (1) (see all 9)
sarcoma	80.1	45	1845482 (2), 7692876 (2), 1928559 (1), 1284388 (1) (see all 37)
myofibroblastoma	78.7	4	10235504 (1), 9805854 (1), 1661895 (1), 1918406 (1)
stromal tumors	78.3	11	7527534 (2), 16550975 (1), 12475434 (1), 14668550 (1) (see all 9)
carcinoma spindle cell	76.9	6	9872659 (1), 8005741 (1), 2130227 (1), 15897741 (1)
metastasis	76.7	87	18184460 (4), 20460738 (3), 18383865 (3), 15328185 (2) (see all 58)

Human Genome Epidemiology (HuGE) Navigator: VIM (4 documents)

Export disorders for VIM gene to outside databases

(in PubMed. Associations of this gene to articles via ¹Entrez Gene, ²UniProtKB/Swiss-Prot, ³HGNC, ⁴GAD, ⁵PharmGKB, ⁶HMDB, ⁷DrugBank, ⁸UniProtKB/TrEMBL, ⁹ Novoseek, and/or ¹⁰fRNAdb)
About This Section

PubMed articles for VIM gene, integrated from 9 sources (see all 2923):
(articles sorted by number of sources associating them with VIM)

Utopia: connect your pdf to the dynamic
world of online information

The cellular distribution of serotonin transporter is impeded on serotonin-altered vimentin network. (PubMed id 19270731)^{1, 2, 9} Ahmed B.A....Kilic F. (2009)
Specific in vivo phosphorylation sites determine the assembly dynamics of vimentin intermediate filaments. (PubMed id 14762106)^{1, 2, 9} Eriksson J.E.... Goldman R.D. (2004)
SEREX identification of new tumour-associated antigens in cutaneous T-cell lymphoma. (PubMed id 14996095)^{1, 2, 9} Hartmann T.B.... Eichmueller S. (2004)
Cdk5 mediates vimentin Ser56 phosphorylation during GTP-induced secretion by neutrophils. (PubMed id 21465480)^{1, 2} Lee K.Y.... Rosales J.L. (2012)
A novel role of vimentin filaments: binding and stabilization of collagen mRNAs. (PubMed id 21746880)^{1, 2} Challa A.A. and Stefanovic B. (2011)
Atomic structure of vimentin coil 2. (PubMed id 20176112)^{1, 2} Nicolet S....Strelkov S.V. (2010)
A probability-based approach for high-throughput protein phosphorylation analysis and site localization. (PubMed id 16964243)^{1, 2} Beausoleil S.A.... Gygi S.P. (2006)
Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PubMed id 17081983)^{1, 2} Olsen J.V....Mann M. (2006)
Immunoaffinity profiling of tyrosine phosphorylation in cancer cells. (PubMed id 15592455)^{1, 2} Rush J.... Comb M.J. (2005)
Proteomic profiling of cellular proteins interacting with the hepatitis C virus core protein. (PubMed id 15846844)^{1, 2} Kang S.-M.... Oh J.-W. (2005)

(in PubMed, OMIM, and NCBI Bookshelf)
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		AND	OR
Aliases
Disorders
Free Text

Query String		PubMed OMIM NCBI Bookshelf
	(Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
About This Section

Entrez Gene: 7431	HGNC: 12692	AceView: VIM	Ensembl:ENSG00000026025	euGenes: HUgn7431
ECgene: VIM	H-InvDB: VIM

(According to HUGE)
About This Section

(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section

Name	Description
PharmGKB entry for VIM	Pharmacogenomics, SNPs, Pathways
ATLAS Chromosomes in Cancer entry for VIM	Genetics and Cytogenetics in Oncology and Haematology
Wikipedia	http://en.wikipedia.org/wiki/Vimentin

Intellectual Property for VIM gene
(Patent information from GeneIP, Licensable technologies from WIS Yeda, Salk, Tufts, IP news from LifeMap Sciences, Inc.)

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Patent Information for VIM gene:
Search GeneIP for patents involving VIM

GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search

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Carcinoma Spindle Cell
NEUROPATHY, GIANT AXONAL
Thecoma
Papillary Meningioma
Oncocytoma
Hemangiopericytoma
Secretory Meningioma
Anaplasia
Phyllodes Tumor
malignant fibrous histiocytoma
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