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Aliases & Descriptions for VIM
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc
, and/or 7Ensembl,
8miRBase) About This Section
|
| Aliases |
|---|
| FLJ36605 2 | | OTTHUMP00000019224 2 | | vimentin 2 |
| | |
| | Search outside databases for aliases for VIM genePrevious GC identifers: GC10P017253 GC10P017421 GC10P017275 |
Summaries for VIM(According to Entrez Gene,
Wikipedia's
Gene Wiki,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
| EntrezGene summary for VIM: Along with the microfilaments (actins) and microtubules (tubulins), the intermediate filaments represent a third class of well-characterized cytoskeletal elements. The subunits display a tissue-specific pattern of expression. Desmin (MIM 125660) is the subunit specific for muscle and vimentin the subunit specific for mesenchymal tissue.[supplied by OMIM] UniProtKB/Swiss-Prot: VIME_HUMAN, P08670Function: Vimentins are class-III intermediate filaments found in various non-epithelial cells, especially mesenchymal cellsGene Wiki entry for VIM (Vimentin) |
Genomic Location for VIM
(According to
GeneLoc and/or
HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to
UCSC and
Ensembl,
Transcription factor binding sites according to
SABiosciences) About This Section
| Genomic View: UCSC Golden Path with GeneCards custom track
Transcription factor binding sites upstream to the VIM gene 
Entrez Gene cytogenetic band: 10p13 Ensembl cytogenetic band: 10p12.33 HGNC cytogenetic band: 10p13VIM Gene in genomic location: bands according to Ensembl, locations according to
(and/or Entrez Gene and/or Ensembl if different)
 GeneLoc gene densities for chromosome 10 GeneLoc Exon Structure GeneLoc location for GC10P017310:
(about GC identifiers)
Start:
|
17,311,250 bp from pter |
End:
|
17,319,598 bp from pter |
Size:
|
8,349 bases |
Orientation:
|
plus strand |
RefSeq DNA sequence:- NC_000010.9 NT_077569.2
| Proteins for VIM
(According to
1UniProtKB,
and/or Ensembl,
Phosphorylation sites according to 2Phosphosite,
RefSeq according to NCBI,
PDB rendering according to OCA and/or Proteopedia,
Recombinant Proteins
from Invitrogen,
Millipore,
Sigma-Aldrich,
R&D Systems,
Enzo Life Sciences,
Abnova,
OriGene and/or,
Abcam,
Biochemical Assays by
Invitrogen,
Millipore,
R&D Systems,
Cell Signaling Technology, and/or
Enzo Life Sciences,
Ontologies according to Gene
Ontology Consortium 01 Apr 2009 and
Entrez Gene,
Antibodies by Invitrogen,
Millipore,
Sigma-Aldrich,
R&D Systems,
Cell Signaling Technology,
Abcam,
Abnova, and/or
Novus Biologicals)
About This Section
| UniProtKB/Swiss-Prot: VIME_HUMAN, P08670 (See
protein sequence)Recommended Name: Vimentin Size: 466 amino acids; 53652 Da
Subunit: Homopolymer. Interacts with HCV core protein. Interacts with LGSN and SYNM (By similarity)
Sequence caution: Sequence=BAB71275.1; Type=Miscellaneous discrepancy; Note=Intron retention;
PDB structures from and Proteopedia :1GK4 (3D)
 1GK6 (3D)
 1GK7 (3D)
 3G1E (3D)
 
Secondary accessions: B0YJC2 Q15867 Q15868 Q15869 Q548L2 Q6LER9 Q8N850 Q96ML2 Q9NTM3Post-translational modifications:
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 reorganized1
View phosphorylation sites using PhosphoSite2
REFSEQ proteins: NP_003371.2
ENSEMBL proteins: ENSP00000224237
Human Recombinant Proteins Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 
3 Gene Ontology (GO) cellular component terms (links to tree view): About this table
Antibodies for VIM:  | Invitrogen Antibodies for VIM |  | Millipore Mono- and Polyclonal Antibodies for the study of VIM |  | Sigma-Aldrich Antibody Arrays and Antibodies for VIM |  | R&D Systems Antibodies for VIM (Vimentin) |  | Cell Signaling Technology (CST) Antibodies for VIM  (Vimentin) |  | Antibodies from Abcam (Vimentin), each with their AbpromiseSM |  | Monoclonal and Polyclonal Antibodies from Abnova (VIM) |  | Novus Biologicals Antibodies for VIM |
Assays for VIM: | Protein
Domains/ Families for VIM(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
| - 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, P08670Similarity: Belongs to the intermediate filament family | Gene Function for VIM
(According to MGI Jun 06 2009, UniProtKB,
IUBMB,and/or Genatlas,
shRNA from
OriGene,
Sigma-Aldrich, RNAi from
Sigma-Aldrich,
RNAi Products,
Clones, and
Q-PCR Products
from Invitrogen,
Millipore,
OriGene, and/or
Abnova,
siRNAs from
Applied Biosystems,
SYBR primers from OriGene,
Cell-based Assays from Millipore,
Ontologies according to Gene Ontology Consortium 01 Apr 2009 via
Entrez Gene.)
About This Section
|               OriGene 29mer shRNA kit in GFP-retroviral vector: NM_003380
Applied Biosystems Silencer® siRNAs for VIM
Sigma-Aldrich siRNA for VIM  Sigma-Aldrich shRNA Panels and shRNA for VIM  Explore Sigma-Aldrich super-pooled esiRNAs 
              OriGene GFP tagged cDNA clone in CMV expression vector: NM_003380                                  Myc/DDK tagged cDNA clone in CMV expression vector: NM_003380                                  untagged cDNA clone in CMV expression vector: NM_003380 
Primers: Browse
Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers               OriGene genome-wide validated SYBR primer pairs: NM_003380
UniProtKB/Swiss-Prot: VIME_HUMAN, P08670Function: Vimentins are class-III intermediate filaments found in various non-epithelial cells, especially mesenchymal cellsGenatlas biochemistry entry for VIM:vimentin,intermediate filament protein,expressed in cells of mesenchymal origin,regulated by an antisilencer element11 MGI mutant phenotypes (inferred from 2 alleles ) (MGI details for Vim):
2 Gene Ontology (GO) molecular function terms (links to tree view): About this table | Pathways & Interactions for VIM
(Pathways according to Invitrogen
(maps by GeneGo),
Millipore,
Cell Signaling Technology,
Sigma-Aldrich,
KEGG
and/or UniProtKB,
Sets of similar genes according to GeneDecks,
Proteins Network according to
SABiosciences,
Interactions according to 1UniProtKB,
2MINT, and/or
3STRING,
with links to IntAct and
Ensembl,
Ontologies according to Gene Ontology Consortium 01 Apr 2009 via
Entrez Gene.)
About This Section
|
1 Sigma-Aldrich "Your Favorite Gene" Pathway for VIM (Your Favorite Gene powered by Ingenuity) 
Gene Network CentralTM Interacting Genes and Proteins Network for VIM 
5/213 Interacting proteins for VIM (ENSP000002242373 P086701, 2) via UniProtKB, MINT, and/or STRING (see all 213
)| Interactant | Interaction Details |
|---|
| GeneCard | External ID(s) |
|---|
| TJP1 | Q071572 | STRING (score=.925) MINT-2985160 | | CRMP1 | Q141941, 2 | EBI-353844, EBI-473101 MINT-3980404 MINT-3981786 EBI-353844, EBI-473101 MINT-3980404 MINT-3981786 | | MYST2 | O952511, 2 | EBI-353844, EBI-473199 MINT-3980250 EBI-353844, EBI-473199 MINT-3980250 | | VIM | P086701, 2 | EBI-353844, EBI-353844 MINT-3980352 EBI-353844, EBI-353844 MINT-3980352 | | MDM2 | Q009871 | EBI-353844, EBI-389668 | About this table
3 Gene Ontology (GO) biological process terms (links to tree view): About this table
|
Drugs & Compounds for VIM(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
Sigma-Aldrich, Tocris Bioscience, and/or
Novoseek and Drugs according to
Enzo Life Sciences and/or
PharmGKB)
About This Section
|
Browse Tocris compounds for VIM 10/56 Novoseek chemical compound relationships for VIM gene (see all 56
)
| Compound |
Score |
Articles |
PubMed IDs for Articles with Shared Sentences (# sentences) |
| b 723 |
72.16 |
37 |
7868083 (3), 12883236 (3), 12046609 (2), 1376598 (1) (see all 32) |
| mucicarmine |
70.46 |
6 |
16334025 (1), 11858401 (1), 10405240 (1), 8776426 (1) (see all 6) |
| reticulin |
64.45 |
13 |
7792953 (1), 11858401 (1), 16713546 (1), 8340101 (1) (see all 11) |
| progesterone |
61.32 |
156 |
12090595 (2), 15088145 (2), 11866908 (2), 10881741 (2) (see all 99) |
| hematoxylin |
55.28 |
23 |
7512798 (1), 15049161 (1), 10767834 (1), 16949932 (1) (see all 22) |
| matrigel |
52.13 |
8 |
7528440 (1), 11688960 (1), 1793731 (1), 9637769 (1) (see all 7) |
| cp-49 |
48.80 |
8 |
7615661 (3), 7781747 (2), 10627819 (1), 17927688 (1) (see all 5) |
| s 100 |
48.60 |
7 |
8878020 (2), 11253140 (1), 11253120 (1), 7706516 (1) (see all 6) |
| glycogen |
41.18 |
11 |
10430762 (1), 12368191 (1), 15309018 (1), 7834080 (1) (see all 10) |
| hsa 10 |
36.80 |
3 |
1655359 (1), 9682444 (1) |
About this table
|
Transcripts for VIM(GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 219 Homo sapiens; Jun 2 2009) or GenBank, RefSeq according to Entrez Gene,
DOTS (version 10), and/or
AceView,
non coding RNAs according to
RNAdb,
ESTs according to GeneTide,
exon structure from GeneLoc,
alternative splicing isoforms according to ASD and/or
ECgene,
RNAi Products from Invitrogen,
Millipore, and/or
Abnova,
siRNAs from Applied Biosystems,
Sigma-Aldrich,
shRNA from
Sigma-Aldrich,
OriGene,
Tagged/untagged cDNA clones from
OriGene, Expression Assays from Applied Biosystems) About This Section
|               OriGene 29mer shRNA kit in GFP-retroviral vector: NM_003380
Sigma-Aldrich siRNA for VIM  Sigma-Aldrich shRNA Panels and shRNA for VIM  Explore Sigma-Aldrich super-pooled esiRNAs 
Applied Biosystems Silencer® siRNAs: NM_003380 REFSEQ mRNAs for VIM gene: NM_003380.2
Applied Biosystems TaqMan ® Gene Expression Assays: NM_003380               OriGene GFP tagged cDNA clone in CMV expression vector: NM_003380                                  Myc/DDK tagged cDNA clone in CMV expression vector: NM_003380                                  untagged cDNA clone in CMV expression vector: NM_003380  Additional cDNA sequence: X16478.1 24/170 DOTS entries (see all 170
): DT.100736301 DT.99925994 DT.91733250 DT.95153735 DT.100736262 DT.102844050 DT.100894798 DT.97861183 DT.100736286 DT.100736247 DT.100736370 DT.100736347 DT.100736249 DT.92344625 DT.95153671 DT.99926544 DT.85103186 DT.100736367 DT.97854035 DT.121233616 DT.121233524 DT.100736330 DT.92407751 DT.100736329 24/4539 AceView cDNA sequences (see all 4539
):AA864491 CN485278 CD518347 BU161893 BG165527 BE408672 BU628816 BQ638419 CD677956 CB124019 AU119520 CD514423 AI205250 AU117359 BQ637259 AU138009 AW512942 BQ431930 BQ183072 BP343110 BQ638047 BM453862 CR604958 BQ718572
highest scoring ESTs for VIM:AI982870 AA057801 AA064954 AA065178 AA069676 AA069950 AA070615 AA070949 AA070969 AA071056 Unigene Clusters for VIM: Vimentin Hs.628678 [show with all ESTs], Hs.708825 [show with all ESTs]Unigene Representative Sequences: AK093924, BM458017
GeneLoc Exon Structure
5 Alternative Splicing Database (ASD) splice patterns (SP) for VIM
| ExUns: | 1 | ^ | 2 | ^ | 3a | · | 3b | · | 3c | ^ | 4a | · | 4b | ^ | 5 | ^ | 6 | ^ | 7 | ^ | 8a | · | 8b | ^ | 9 | ^ | 10 | ^ | 11 | |
| SP1: | |   | - |   | |   | |   | |   | - |   | |   | |   | |   | |   | |   | - |   | |   | |   | |   | |
| SP2: | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |
| SP3: | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |
| SP4: | |   | |   | |   | |   | |   | - |   | - |   | |   | |   | |   | |   | |   | |   | |   | |   | |
| SP5: | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   |
About this scheme
ECgene alternative splicing isoforms for VIM
1 Ensembl transcript including schematic representation: ENST00000224237
|
Expression for VIM
(Experimental results according to
1GeneNote
and GNF BioGPS,
probe sets-to-genes annotations according to
2GeneAnnot ,
3GeneTide ,
Sets of similar genes according to GeneDecks,
Electronic Northern calculations according to data from
UniGene (Build 219 Homo sapiens),
SAGE tags according to
CGAP,
plus additional links to
SOURCE, and/or
GNF
BioGPS, and/or
EXPOLDB, and/or
UniProtKB,
Expression Assays from
Applied Biosystems
)
About This Section
| VIM expression in normal and diseased human tissues
Applied Biosystems TaqMan ® Gene Expression Assays for VIM
1 / 2 / 3 5 probe-sets matching VIM gene Data from
(Publications) and GNF BioGPS About these images About these images
CGAP SAGE TAG: TCCAAATCGA
SOURCE GeneReport for Unigene clusters: Hs.628678 Hs.708825
Expression variation in blood from EXPOLDB for VIM UniProtKB/Swiss-Prot: VIME_HUMAN, P08670Tissue 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 |
Orthologs for VIM
(Orthologs according to
1,2HomoloGene (2older version, for species not in 1newer version),
3euGenes,
4SGD
and/or
5MGI Jun 06 2009,
with possible further links to
Flybase
and/or
WormBase,
Gene Trees according to Ensembl)
About This Section
|
Orthologs for VIM gene from 5/10 species (see all 10
)
About this table Species with no ortholog for VIM
ENSEMBL Gene Tree for VIM | Paralogs for VIM(Paralogs according to 1HomoloGene and 2Ensembl, Pseudogenes according to 3Pseudogene.org) About This Section
| Paralogs for VIM gene
- DES2 PRPH2 GFAP2
Pseudogenes
- 1 related pseudogene
|
SNPs/Variants for VIM(According to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE, and
UniProtKB,
Linkage Disequilibrium by HapMap,
Genotyping Reagents from
Applied Biosystems)
About This Section
|
HapMap Linkage Disequilibrium images for VIM (up to first 250kb)
|
Disorders & Mutations for VIM
(in which this Gene is Involved, According to
OMIM, UniProtKB,
Novoseek, PharmGKB,
Genatlas, GeneTests,
Blood group antigen gene mutations by BGMUT,
HGMD, GAD,
HuGE Navigator,
BCGD,
and/or TGDB.)
About This Section
|
OMIM: 193060
10/94 Novoseek disease relationships for VIM gene (see all 94
)
| Disease |
Score |
Articles |
PubMed IDs for Articles with Shared Sentences (# sentences) |
| tumors |
85.92 |
1720 |
2153347 (5), 7518849 (5), 18632620 (4), 2173410 (4) (see all 99) |
| rhabdoid tumor |
83.96 |
9 |
15471430 (1), 19432675 (1), 11557780 (1), 8781656 (1) (see all 9) |
| myoepithelioma |
83.09 |
11 |
1694334 (1), 15619979 (1), 15717758 (1), 16099771 (1) (see all 10) |
| carcinosarcoma |
81.55 |
8 |
1696005 (1), 18281472 (1), 15132766 (1), 1283991 (1) (see all 8) |
| sarcoma epithelioid |
80.24 |
12 |
7679559 (3), 1689556 (1), 11309041 (1), 16778474 (1) (see all 8) |
| sarcoma |
79.54 |
42 |
1845482 (2), 7692876 (2), 1928559 (1), 1284388 (1) (see all 34) |
| stromal tumors |
79.19 |
11 |
7527534 (2), 16550975 (1), 12475434 (1), 14668550 (1) (see all 9) |
| myofibroblastoma |
77.71 |
4 |
10235504 (1), 9805854 (1), 1661895 (1), 1918406 (1) |
| carcinoma spindle cell |
76.51 |
6 |
9872659 (1), 8005741 (1), 2130227 (1), 15897741 (1) |
| leiomyosarcoma |
76.08 |
16 |
1716444 (2), 9298873 (2), 16136754 (1), 17725305 (1) (see all 14) |
About this table
Human Genome Epidemiology Navigator: VIM (3 documents)
|
Medical News for VIM(Possibly Related Articles in
Doctor's Guide)
About This Section
| |
Publications for VIM (in
PubMed.
Associations of this gene to articles via
1Novoseek,
2HGNC,
3Entrez Gene,
4UniProtKB/Swiss-Prot,
5UniProtKB/TrEMBL,
6GAD, and/or
7PharmGKB)
About This Section
| 10/2498 PubMed articles for VIM gene (see all 2498
):- SEREX identification of new tumour-associated antigens in cutaneous T-cell lymphoma. (PubMed id 14996095)1, 3, 4 Hartmann T.B.... Eichmueller S. (2004)
- A probability-based approach for high-throughput protein phosphorylation analysis and site localization. (PubMed id 16964243)3, 4 Beausoleil S.A.... Gygi S.P. (2006)
- Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PubMed id 17081983)3, 4 Olsen J.V....Mann M. (2006)
- Phosphoproteome analysis of the human mitotic spindle. (PubMed id 16565220)3, 4 Nousiainen M.... Koerner R. (2006)
- Immunoaffinity profiling of tyrosine phosphorylation in cancer cells. (PubMed id 15592455)3, 4 Rush J.... Comb M.J. (2005)
- Proteomic profiling of cellular proteins interacting with the hepatitis C virus core protein. (PubMed id 15846844)3, 4 Kang S.-M.... Oh J.-W. (2005)
- Specific in vivo phosphorylation sites determine the assembly dynamics of vimentin intermediate filaments. (PubMed id 14762106)3, 4 Eriksson J.E.... Goldman R.D. (2004)
- The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)3, 4 Gerhard D.S....Malek J. (2004)
- Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)3, 4 Ota T....Sugano S. (2004)
- The DNA sequence and comparative analysis of human chromosome 10. (PubMed id 15164054)3, 4 Deloukas P.... Rogers J. (2004)
|
Search for VIM
(in PubMed,
OMIM, and NCBI Bookshelf) About This Section
|
|
Genome Databases showing VIM
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
and/or
H-InvDB)
About This Section
|
| Other Databases showing VIM
(According to HUGE)
About This Section
| -- |
Specialized Databases showing VIM(According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL, Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot) About This Section
|
| About This Section
| --
| Services for VIM(Reagents available from Applied Biosystems, Antibodies and assays by Cell
Signaling Technology, Abcam, Novus Biologicals, Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich, Enzo Life Sciences, and/or Tocris Bioscience) About This Section
| 
 Products for VIM:

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| Antibodies & Assays for VIM  (Vimentin) |
| | | | Search Tocris compounds for VIM |
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Incremental update: 13 Oct 2009
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