VIM (vimentin)

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VIM (vimentin)

Identity

Other alias	-
HGNC (Hugo)	VIM
LocusID (NCBI)	7431
Atlas_Id	42791
Location	10p13 [Link to chromosome band 10p13]
Location_base_pair	Starts at 17228210 and ends at 17237597 bp from pter ( according to hg38-Dec_2013)

Fusion genes
(updated 2017)

Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)

COL5A2 (2q32.2) / VIM (10p13)	ENO3 (17p13.2) / VIM (10p13)	FOS (14q24.3) / VIM (10p13)
KRT8 (12q13.13) / VIM (10p13)	PRR13 (12q13.13) / VIM (10p13)	SPAG9 (17q21.33) / VIM (10p13)
VIM (10p13) / DNM1L (12p11.21)	VIM (10p13) / EEA1 (12q22)	VIM (10p13) / IQCE (7p22.3)
VIM (10p13) / IQCG (3q29)	VIM (10p13) / KRT7 (12q13.13)	VIM (10p13) / LAMA4 (6q21)
VIM (10p13) / PLEKHA5 (12p12.3)	VIM (10p13) / SIAE (11q24.2)	VIM (10p13) / ZNF664 (12q24.31)
VIM 10p13 / DNM1L 12p11.21	VIM 10p13 / EEA1 12q22	VIM 10p13 / IQCE 7p22.3
VIM 10p13 / LAMA4 6q21	VIM 10p13 / PLEKHA5 12p12.3	VIM 10p13 / SIAE 11q24.2

Note	Non-annotated gene. Preliminary data : if you are an author who wish to write a full paper/card on this gene, go to How to contribute

DNA/RNA

Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 5 ]

t(7;10)(p22;p13) VIM/IQCE
t(10;11)(p13;q24) VIM/SIAE
t(10;12)(p13;p11) VIM/DNM1L
t(10;12)(p13;p12) VIM/PLEKHA5
Bone: Vascular Tumors

External links

	Nomenclature
HGNC (Hugo)	VIM 12692
	Cards
Entrez_Gene (NCBI)	VIM 7431 vimentin
Aliases
GeneCards (Weizmann)	VIM
Ensembl hg19 (Hinxton)	ENSG00000026025 [Gene_View]
Ensembl hg38 (Hinxton)	ENSG00000026025 [Gene_View] ENSG00000026025 [Sequence] chr10:17228210-17237597 [Contig_View] VIM [Vega]
ICGC DataPortal	ENSG00000026025
TCGA cBioPortal	VIM
AceView (NCBI)	VIM
Genatlas (Paris)	VIM
WikiGenes	7431
SOURCE (Princeton)	VIM
Genetics Home Reference (NIH)	VIM
	Genomic and cartography
GoldenPath hg38 (UCSC)	VIM - chr10:17228210-17237597 + 10p13 [Description] (hg38-Dec_2013)
GoldenPath hg19 (UCSC)	VIM - 10p13 [Description] (hg19-Feb_2009)
GoldenPath	VIM - 10p13 [CytoView hg19] VIM - 10p13 [CytoView hg38]
ImmunoBase	ENSG00000026025
Mapping of homologs : NCBI	VIM [Mapview hg19] VIM [Mapview hg38]
OMIM	116300 193060
	Gene and transcription
Genbank (Entrez)	AF328728 AK056766 AK091813 AK093924 AK097336
RefSeq transcript (Entrez)	NM_003380
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)	VIM
Cluster EST : Unigene	Hs.728090 [ NCBI ]
CGAP (NCI)	Hs.728090
Alternative Splicing Gallery	ENSG00000026025
Gene Expression	VIM [ NCBI-GEO ] VIM [ EBI - ARRAY_EXPRESS ] VIM [ SEEK ] VIM [ MEM ]
Gene Expression Viewer (FireBrowse)	VIM [ Firebrowse - Broad ]
SOURCE (Princeton)	Expression in : [Datasets] [Normal Tissue Atlas] [carcinoma Classsification] [NCI60]
Genevestigator	Expression in : [tissues] [cell-lines] [cancer] [perturbations]
BioGPS (Tissue expression)	7431
GTEX Portal (Tissue expression)	VIM
Human Protein Atlas	ENSG00000026025-VIM [pathology] [cell] [tissue]
	Protein : pattern, domain, 3D structure
UniProt/SwissProt	P08670 [function] [subcellular_location] [family_and_domains] [pathology_and_biotech] [ptm_processing] [expression] [interaction]
NextProt	P08670 [Sequence] [Exons] [Medical] [Publications]
With graphics : InterPro	P08670
Splice isoforms : SwissVar	P08670
PhosPhoSitePlus	P08670
Domaine pattern : Prosite (Expaxy)	IF_ROD_1 (PS00226) IF_ROD_2 (PS51842)
Domains : Interpro (EBI)	IF Intermed_filament_DNA-bd Intermediate_filament_CS Vimentin
Domain families : Pfam (Sanger)	Filament (PF00038) Filament_head (PF04732)
Domain families : Pfam (NCBI)	pfam00038 pfam04732
Domain families : Smart (EMBL)	Filament (SM01391)
Conserved Domain (NCBI)	VIM
DMDM Disease mutations	7431
Blocks (Seattle)	VIM
PDB (RSDB)	1GK4 1GK6 1GK7 3G1E 3KLT 3S4R 3SSU 3SWK 3TRT 3UF1 4MCY 4MCZ 4MD0 4MD5 4MDI 4MDJ 4YPC 4YV3 6ATF 6ATI
PDB Europe	1GK4 1GK6 1GK7 3G1E 3KLT 3S4R 3SSU 3SWK 3TRT 3UF1 4MCY 4MCZ 4MD0 4MD5 4MDI 4MDJ 4YPC 4YV3 6ATF 6ATI
PDB (PDBSum)	1GK4 1GK6 1GK7 3G1E 3KLT 3S4R 3SSU 3SWK 3TRT 3UF1 4MCY 4MCZ 4MD0 4MD5 4MDI 4MDJ 4YPC 4YV3 6ATF 6ATI
PDB (IMB)	1GK4 1GK6 1GK7 3G1E 3KLT 3S4R 3SSU 3SWK 3TRT 3UF1 4MCY 4MCZ 4MD0 4MD5 4MDI 4MDJ 4YPC 4YV3 6ATF 6ATI
Structural Biology KnowledgeBase	1GK4 1GK6 1GK7 3G1E 3KLT 3S4R 3SSU 3SWK 3TRT 3UF1 4MCY 4MCZ 4MD0 4MD5 4MDI 4MDJ 4YPC 4YV3 6ATF 6ATI
SCOP (Structural Classification of Proteins)	1GK4 1GK6 1GK7 3G1E 3KLT 3S4R 3SSU 3SWK 3TRT 3UF1 4MCY 4MCZ 4MD0 4MD5 4MDI 4MDJ 4YPC 4YV3 6ATF 6ATI
CATH (Classification of proteins structures)	1GK4 1GK6 1GK7 3G1E 3KLT 3S4R 3SSU 3SWK 3TRT 3UF1 4MCY 4MCZ 4MD0 4MD5 4MDI 4MDJ 4YPC 4YV3 6ATF 6ATI
Superfamily	P08670
Human Protein Atlas [tissue]	ENSG00000026025-VIM [tissue]
Peptide Atlas	P08670
HPRD	01899
IPI	IPI00418471 IPI00975690 IPI00982595 IPI00552689
	Protein Interaction databases
DIP (DOE-UCLA)	P08670
IntAct (EBI)	P08670
FunCoup	ENSG00000026025
BioGRID	VIM
STRING (EMBL)	VIM
ZODIAC	VIM
	Ontologies - Pathways
QuickGO	P08670
Ontology : AmiGO	double-stranded RNA binding structural constituent of cytoskeleton structural constituent of eye lens protein binding cytoplasm peroxisome cytosol cytosol polysome cytoskeleton cytoskeleton intermediate filament plasma membrane focal adhesion negative regulation of neuron projection development astrocyte development viral process nuclear matrix cytokine-mediated signaling pathway protein domain specific binding muscle filament sliding cell leading edge positive regulation of collagen biosynthetic process identical protein binding neuron projection regulation of mRNA stability intermediate filament organization phagocytic vesicle positive regulation of translation Bergmann glial cell differentiation SMAD protein signal transduction extracellular exosome lens fiber cell development cellular response to lipopolysaccharide cellular response to muramyl dipeptide cellular response to interferon-gamma scaffold protein binding keratin filament binding ribonucleoprotein complex
Ontology : EGO-EBI	double-stranded RNA binding structural constituent of cytoskeleton structural constituent of eye lens protein binding cytoplasm peroxisome cytosol cytosol polysome cytoskeleton cytoskeleton intermediate filament plasma membrane focal adhesion negative regulation of neuron projection development astrocyte development viral process nuclear matrix cytokine-mediated signaling pathway protein domain specific binding muscle filament sliding cell leading edge positive regulation of collagen biosynthetic process identical protein binding neuron projection regulation of mRNA stability intermediate filament organization phagocytic vesicle positive regulation of translation Bergmann glial cell differentiation SMAD protein signal transduction extracellular exosome lens fiber cell development cellular response to lipopolysaccharide cellular response to muramyl dipeptide cellular response to interferon-gamma scaffold protein binding keratin filament binding ribonucleoprotein complex
Pathways : KEGG	Epstein-Barr virus infection MicroRNAs in cancer
NDEx Network	VIM
Atlas of Cancer Signalling Network	VIM
Wikipedia pathways	VIM
	Orthology - Evolution
OrthoDB	7431
GeneTree (enSembl)	ENSG00000026025
Phylogenetic Trees/Animal Genes : TreeFam	VIM
HOGENOM	P08670
Homologs : HomoloGene	VIM
Homology/Alignments : Family Browser (UCSC)	VIM
	Gene fusions - Rearrangements
Fusion : Mitelman	VIM/DNM1L [10p13/12p11.21]
Fusion : Mitelman	VIM/IQCE [10p13/7p22.3] [t(7;10)(p22;p13)]
Fusion : Mitelman	VIM/PLEKHA5 [10p13/12p12.3] [t(10;12)(p13;p12)]
Fusion : Mitelman	VIM/SIAE [10p13/11q24.2] [t(10;11)(p13;q24)]
Fusion Portal	VIM 10p13 DNM1L 12p11.21 KIRC
Fusion Portal	VIM 10p13 EEA1 12q22 HNSC
Fusion Portal	VIM 10p13 IQCE 7p22.3 LUAD
Fusion Portal	VIM 10p13 LAMA4 6q21 SKCM
Fusion Portal	VIM 10p13 PLEKHA5 12p12.3 SKCM
Fusion Portal	VIM 10p13 SIAE 11q24.2 KIRC
Fusion : Quiver	VIM
	Polymorphisms : SNP and Copy number variants
NCBI Variation Viewer	VIM [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)	VIM
dbVar	VIM
ClinVar	VIM
1000_Genomes	VIM
Exome Variant Server	VIM
ExAC (Exome Aggregation Consortium)	ENSG00000026025
GNOMAD Browser	ENSG00000026025
Varsome Browser	VIM
Genetic variants : HAPMAP	7431
Genomic Variants (DGV)	VIM [DGVbeta]
DECIPHER	VIM [patients] [syndromes] [variants] [genes]
CONAN: Copy Number Analysis	VIM
	Mutations
ICGC Data Portal	VIM
TCGA Data Portal	VIM
Broad Tumor Portal	VIM
OASIS Portal	VIM [ Somatic mutations - Copy number]
Mutations and Diseases : HGMD	VIM
intOGen Portal	VIM
LOVD (Leiden Open Variation Database)	Whole genome datasets
LOVD (Leiden Open Variation Database)	LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)	LOVD 3.0 shared installation
LOVD (Leiden Open Variation Database)	Eye diseases - LOVD
BioMuta	search VIM
DgiDB (Drug Gene Interaction Database)	VIM
DoCM (Curated mutations)	VIM (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)	VIM (select a term)
intoGen	VIM
Cancer3D	VIM(select the gene name)
Impact of mutations	[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
	Diseases
OMIM	116300 193060
Orphanet	14001
DisGeNET	VIM
Medgen	VIM
Genetic Testing Registry	VIM
NextProt	P08670 [Medical]
TSGene	7431
GENETests	VIM
Target Validation	VIM
Huge Navigator	VIM [HugePedia]
snp3D : Map Gene to Disease	7431
BioCentury BCIQ	VIM
ClinGen	VIM
	Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD	7431
Chemical/Pharm GKB Gene	PA37311
Clinical trial	VIM
	Miscellaneous
canSAR (ICR)	VIM (select the gene name)
DataMed Index	VIM
	Probes
	Litterature
PubMed	499 Pubmed reference(s) in Entrez
GeneRIFs	Gene References Into Functions (Entrez)
CoreMine	VIM
EVEX	VIM
GoPubMed	VIM
iHOP	VIM

Genes in title	automatic search in PubMed
REVIEW articles	automatic search in PubMed
Last year publications	automatic search in PubMed

Search in all EBI NCBI

indexed on : Wed Nov 13 18:14:56 CET 2019

Home Genes Leukemias Solid Tumors Cancer-Prone Deep Insight Case Reports Journals Portal Teaching

For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.

Atlas of Genetics and Cytogenetics in Oncology and Haematology

VIM (vimentin)

Non-annotated gene. Preliminary data : if you are an author who wish to write a full paper/card on this gene, go to How to contribute

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to How to contribute