VIM (vimentin) - Rat Genome Database
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Gene: VIM (vimentin) Sus scrofa
Analyze
Symbol: VIM
Name: vimentin
RGD ID: 13864764
Description: ENCODES a protein that exhibits kinase binding (ortholog); protein kinase binding (ortholog); protein phosphatase 2A binding (ortholog); INVOLVED IN aging (ortholog); cellular response to fibroblast growth factor stimulus (ortholog); cellular response to lipopolysaccharide (ortholog); PARTICIPATES IN cyclooxygenase mediated pathway of arachidonic acid metabolism; ASSOCIATED WITH Acute Coronary Syndrome (ortholog); Alzheimer's disease (ortholog); amyotrophic lateral sclerosis type 1 (ortholog); FOUND IN axon (ortholog); cell body (ortholog); cell projection (ortholog); INTERACTS WITH deoxynivalenol
Type: protein-coding
RefSeq Status: MODEL
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1043,517,307 - 43,526,172 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11043,516,441 - 43,526,172 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21048,225,950 - 48,235,670 (+)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:6628686   PMID:6945574   PMID:7199625   PMID:9682444   PMID:14681463   PMID:15265077   PMID:16378972   PMID:17145712   PMID:20865782   PMID:21798293   PMID:24474691   PMID:25533531  
PMID:25787077   PMID:30053894  


Genomics

Comparative Map Data
VIM
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1043,517,307 - 43,526,172 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11043,516,441 - 43,526,172 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21048,225,950 - 48,235,670 (+)NCBISscrofa10.2Sscrofa10.2susScr3
VIM
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1017,228,241 - 17,237,593 (+)EnsemblGRCh38hg38GRCh38
GRCh381017,228,241 - 17,237,593 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371017,269,934 - 17,279,592 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361017,311,304 - 17,319,598 (+)NCBINCBI36hg18NCBI36
Build 341017,311,308 - 17,319,594NCBI
Celera1017,203,520 - 17,212,854 (+)NCBI
Cytogenetic Map10p13NCBI
HuRef1017,183,488 - 17,192,823 (+)NCBIHuRef
CHM1_11017,270,372 - 17,279,705 (+)NCBICHM1_1
Vim
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39213,579,122 - 13,587,637 (+)NCBIGRCm39mm39
GRCm38213,574,311 - 13,582,826 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl213,573,927 - 13,582,826 (+)EnsemblGRCm38mm10GRCm38
MGSCv37213,495,938 - 13,504,453 (+)NCBIGRCm37mm9NCBIm37
MGSCv36213,491,805 - 13,500,660 (+)NCBImm8
Celera213,484,803 - 13,493,320 (+)NCBICelera
Cytogenetic Map2A1NCBI
cM Map210.04NCBI
Vim
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.01780,882,715 - 80,891,200 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1780,882,666 - 80,891,212 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01782,500,898 - 82,509,383 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41787,847,280 - 87,855,763 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11787,858,112 - 87,866,596 (+)NCBI
Celera1776,037,845 - 76,046,329 (+)NCBICelera
Cytogenetic Map17q12.3NCBI
Vim
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542910,707,719 - 10,717,554 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542910,708,852 - 10,716,743 (-)NCBIChiLan1.0ChiLan1.0
VIM
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11017,818,285 - 17,826,642 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1017,818,285 - 17,826,642 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01017,546,389 - 17,554,702 (+)NCBIMhudiblu_PPA_v0panPan3
VIM
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl219,671,316 - 19,679,466 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1219,671,316 - 19,679,367 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Vim
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_00493652010,051,692 - 10,059,324 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
VIM
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 Ensembl917,183,388 - 17,191,829 (+)Ensembl
ChlSab1.1917,183,466 - 17,191,771 (+)NCBI
Vim
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462479610,624,672 - 10,632,300 (-)NCBI


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 10 4 3 5 2 14 2 3 3
Low 9
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_005668106 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_005668107 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AEMK02000074 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK234535 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK235115 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK392776 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK394062 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK395522 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK397934 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK398491 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK398785 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK398912 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK399076 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK400847 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY368193 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CU570641 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ190948 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  GBZA01000712 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  GFLN01046941 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSSSCT00000012075   ⟹   ENSSSCP00000011767
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1043,517,307 - 43,526,164 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000065218   ⟹   ENSSSCP00000031624
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1043,517,307 - 43,524,689 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000071311   ⟹   ENSSSCP00000060330
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1043,517,451 - 43,526,172 (+)Ensembl
RefSeq Acc Id: XM_005668106   ⟹   XP_005668163
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11043,516,441 - 43,526,172 (+)NCBI
Sequence:
RefSeq Acc Id: XM_005668107   ⟹   XP_005668164
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11043,516,441 - 43,526,172 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005668163 (Get FASTA)   NCBI Sequence Viewer  
  XP_005668164 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAR24396 (Get FASTA)   NCBI Sequence Viewer  
  ABA39527 (Get FASTA)   NCBI Sequence Viewer  
  JAG69056 (Get FASTA)   NCBI Sequence Viewer  
  P02543 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_005668163   ⟸   XM_005668106
- Peptide Label: isoform X1
- UniProtKB: P02543 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_005668164   ⟸   XM_005668107
- Peptide Label: isoform X2
- UniProtKB: A0A2C9F3D9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000031624   ⟸   ENSSSCT00000065218
RefSeq Acc Id: ENSSSCP00000011767   ⟸   ENSSSCT00000012075
RefSeq Acc Id: ENSSSCP00000060330   ⟸   ENSSSCT00000071311
Protein Domains
IF rod


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000011033 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSSSCG00040040033 UniProtKB/Swiss-Prot
  ENSSSCG00065018310 UniProtKB/Swiss-Prot
  ENSSSCG00070015838 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSSSCP00000011767 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSSSCP00000031624 UniProtKB/TrEMBL
  ENSSSCP00000060330 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCP00040022589 UniProtKB/Swiss-Prot
  ENSSSCP00065009974 UniProtKB/Swiss-Prot
  ENSSSCP00070025960 UniProtKB/Swiss-Prot
  ENSSSCP00070025962 UniProtKB/TrEMBL
  ENSSSCP00070025967 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000012075 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSSSCT00000065218 UniProtKB/TrEMBL
  ENSSSCT00000071311 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCT00040054295 UniProtKB/Swiss-Prot
  ENSSSCT00065024421 UniProtKB/Swiss-Prot
  ENSSSCT00070031129 UniProtKB/Swiss-Prot
  ENSSSCT00070031133 UniProtKB/TrEMBL
  ENSSSCT00070031143 UniProtKB/TrEMBL
Gene3D-CATH 1.20.5.1160 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro IF_conserved UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IF_rod_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IF_rod_dom_coil1B UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Intermed_filament_DNA-bd UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Vimentin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report ssc:100522394 UniProtKB/Swiss-Prot
NCBI Gene VIM ENTREZGENE
PANTHER PTHR45652:SF5 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Filament UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Filament_head UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE IF_ROD_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IF_ROD_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART Filament UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniGene Ssc.42613 ENTREZGENE
UniProt A0A2C9F3D9 ENTREZGENE
  A0A4X1UCD8_PIG UniProtKB/TrEMBL
  A0A4X1UCE3_PIG UniProtKB/TrEMBL
  A0A5G2QE62_PIG UniProtKB/TrEMBL
  A0A5S6H025_PIG UniProtKB/TrEMBL
  P02543 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary F1RWB8 UniProtKB/Swiss-Prot
  F1RWC0 UniProtKB/Swiss-Prot
VGNC ID VGNC:95565 ENTREZGENE