Human Gene VIM (ENST00000544301.7_6) from GENCODE V47lift37
  Description: vimentin (from RefSeq NM_003380.5)
Gencode Transcript: ENST00000544301.7_6
Gencode Gene: ENSG00000026025.16_14
Transcript (Including UTRs)
   Position: hg19 chr10:17,270,240-17,279,592 Size: 9,353 Total Exon Count: 10 Strand: +
Coding Region
   Position: hg19 chr10:17,271,422-17,279,270 Size: 7,849 Coding Exon Count: 9 

Page IndexSequence and LinksPrimersMalaCardsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureOther SpeciesmRNA DescriptionsOther Names
Model InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr10:17,270,240-17,279,592)mRNA (may differ from genome)Protein (466 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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HGNCMalacardsMGIOMIMPubMedUniProtKB
WikipediaBioGrid CRISPR DB

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: VIM
Diseases sorted by gene-association score: cataract 30, pulverulent* (1666), malignant mixed mullerian tumor (37), spindle cell carcinoma (32), glomus tumor (31), clear cell ependymoma (30), spindle cell sarcoma (27), epithelioid sarcoma (23), chondroid chordoma (23), nodular hidradenoma (23), adenoid squamous cell carcinoma (22), granular cell tumor (20), malignant peripheral nerve sheath tumor (19), epithelioid leiomyosarcoma (19), adenomatoid tumor (19), intravascular papillary endothelial hyperplasia (18), chordoma (18), papillary tumor of the pineal region (18), infantile digital fibromatosis (18), odontogenic myxoma (18), malignant peritoneal mesothelioma (18), tubulocystic renal cell carcinoma (18), dendritic cell tumor (18), congenital epulis (18), reticulum cell sarcoma (18), central nervous system sarcoma (18), epulis (18), fibroma (18), angiolipoma (18), secretory meningioma (17), phyllode tumor (17), pleomorphic adenoma (16), rhabdoid meningioma (15), eccrine porocarcinoma (15), sternum cancer (15), ependymoblastoma (15), smooth muscle tumor (15), sertoli cell tumor (15), undifferentiated pleomorphic sarcoma (14), granulosa cell tumor of the ovary (13), giant axonal neuropathy (13), multicentric reticulohistiocytosis (13), endocervical adenocarcinoma (13), spindle cell lipoma (13), mesenchymal chondrosarcoma (13), senile angioma (13), regional odontodysplasia (13), giant cell tumor (12), glomangiomyoma (12), lymphangiectasis (12), embryonal sarcoma (12), liver angiosarcoma (12), papillary adenoma (12), perineurioma (12), angiosarcoma (12), myoepithelial carcinoma (11), dermatofibrosarcoma protuberans (11), melanotic neuroectodermal tumor (11), polymorphous low-grade adenocarcinoma (10), alveolar soft-part sarcoma (10), ovarian mucinous cystadenocarcinoma (10), granuloma annulare (10), hydromyelia (10), pericardial mesothelioma (10), gynandroblastoma (10), mast-cell sarcoma (10), hemangiopericytoma, malignant (10), cavernous hemangioma (10), fibromatosis (10), hidradenoma (9), ependymoma (9), parachordoma (9), chandler syndrome (9), esophagus squamous cell carcinoma (9), leiomyosarcoma (9), pleomorphic liposarcoma (9), endometrial mucinous adenocarcinoma (9), myoclonic cerebellar dyssynergia (9), anaplastic ependymoma (9), glomangioma (9), fibrous meningioma (9), cutaneous leiomyosarcoma (9), ameloblastic carcinoma (9), metanephric adenoma (9), fibrous histiocytoma (9), cystadenocarcinoma (9), meninges hemangiopericytoma (9), desmoplastic small round cell tumor (8), medulloepithelioma (8), liposarcoma (8), ossifying fibromyxoid tumor (8), primitive neuroectodermal tumor of the cervix uteri (8), chordoid meningioma (8), nodular lymphocyte predominant hodgkin lymphoma (8), syringoma (8), juvenile xanthogranuloma (8), cerebral primitive neuroectodermal tumor (8), monophasic synovial sarcoma (8), neuronal migration disorders (8), benign metastasizing leiomyoma (8), biphasic synovial sarcoma (8), primary hepatic neuroendocrine carcinoma (8), bednar tumor (8), lymphangiomatosis (8), congenital fibrosarcoma (8), gingival hypertrophy (8), endometrial stromal sarcoma (8), rhabdoid cancer (8), renal clear cell carcinoma (8), mucinous cystadenocarcinoma (7), villonodular synovitis (7), syringocystadenoma papilliferum (7), clear cell meningioma (7), gastrointestinal stromal tumor (7), astroblastoma (7), myxopapillary ependymoma (7), pseudosarcomatous fibromatosis (7), dermoid cyst (7), amelanotic melanoma (7), retroperitoneal fibrosis (7), benign mesothelioma (7), adenofibroma (7), large cell medulloblastoma (7), collecting duct carcinoma (7), perivascular epithelioid cell tumor (7), cutaneous fibrous histiocytoma (7), sarcoma, synovial (7), tay-sachs disease (7), epithelial-myoepithelial carcinoma (7), acral lentiginous melanoma (7), sarcomatoid mesothelioma (7), optic nerve glioma (7), tuberous sclerosis (7), dystonia-1, torsion (6), extraskeletal ewing sarcoma (6), syndrome of inappropriate antidiuretic hormone (6), endodermal sinus tumor (6), angiocentric glioma (6), adenosarcoma (6), odontoma (6), meningioma, familial (6), papillary adenocarcinoma (6), infantile myofibromatosis (6), spiradenoma (6), lymphangioma (6), fibrolamellar carcinoma (6), osteofibrous dysplasia (5), glossopharyngeal neuralgia (5), oxyphilic adenoma (5), peliosis hepatis (5), osteochondroma (5), focal hand dystonia (5), neurilemmoma (5), fasciitis (5), hidradenocarcinoma (5), chondromyxoid fibroma (4), pneumothorax (4), inflammatory myofibroblastic tumor (4), hemidystonia (4), dystonia-11, myoclonic (4), glossopharyngeal nerve disease (4), gliosarcoma (4), astrocytoma (3), renal cell carcinoma (3), ewing sarcoma (2), hepatitis c virus (2), mesothelioma, somatic (2), fanconi anemia, complementation group a (1)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 1369.30 RPKM in Artery - Tibial
Total median expression: 17623.75 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -154.80431-0.359 Picture PostScript Text
3' UTR -57.40322-0.178 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
      
      

-  Descriptions from all associated GenBank mRNAs
  LQ740465 - Sequence 19 from Patent WO2018083189.
LF211788 - JP 2014500723-A/19291: Polycomb-Associated Non-Coding RNAs.
BC066956 - Homo sapiens vimentin, mRNA (cDNA clone MGC:87432 IMAGE:4823475), complete cds.
LF205547 - JP 2014500723-A/13050: Polycomb-Associated Non-Coding RNAs.
AK222507 - Homo sapiens mRNA for vimentin variant, clone: adSE00236.
AK222602 - Homo sapiens mRNA for vimentin variant, clone: CAS06773.
EU794672 - Homo sapiens epididymis luminal protein 113 (HEL113) mRNA, complete cds.
AK056766 - Homo sapiens cDNA FLJ32204 fis, clone PLACE6003077, highly similar to VIMENTIN.
AK091813 - Homo sapiens cDNA FLJ34494 fis, clone HLUNG2005030, highly similar to VIMENTIN.
AK097336 - Homo sapiens cDNA FLJ40017 fis, clone STOMA2006330, highly similar to VIMENTIN.
AK098444 - Homo sapiens cDNA FLJ25578 fis, clone JTH07876, highly similar to VIMENTIN.
X16478 - Human mRNA 5'-fragment for vimentin N-terminal fragment.
AK222482 - Homo sapiens mRNA for vimentin variant, clone: adKA02440.
AF328728 - Homo sapiens CTCL tumor antigen HD-CL-06 mRNA, complete sequence.
BC030573 - Homo sapiens vimentin, mRNA (cDNA clone MGC:16183 IMAGE:3637336), complete cds.
BC000163 - Homo sapiens vimentin, mRNA (cDNA clone MGC:5062 IMAGE:2985712), complete cds.
GQ900939 - Homo sapiens clone HEL-T-51 epididymis secretory sperm binding protein mRNA, complete cds.
Z19554 - Homo sapiens vimentin gene, clone vim6.
JD329678 - Sequence 310702 from Patent EP1572962.
JD069288 - Sequence 50312 from Patent EP1572962.
JD121854 - Sequence 102878 from Patent EP1572962.
LF346167 - JP 2014500723-A/153670: Polycomb-Associated Non-Coding RNAs.
X56134 - Human mRNA for vimentin.
AK290643 - Homo sapiens cDNA FLJ76120 complete cds, highly similar to Homo sapiens vimentin (VIM), mRNA.
JD209677 - Sequence 190701 from Patent EP1572962.
AB590763 - Synthetic construct DNA, clone: pFN21AE1928, Homo sapiens VIM gene for vimentin, without stop codon, in Flexi system.
CU674070 - Synthetic construct Homo sapiens gateway clone IMAGE:100017328 5' read VIM mRNA.
KJ892377 - Synthetic construct Homo sapiens clone ccsbBroadEn_01771 VIM gene, encodes complete protein.
CR407690 - Homo sapiens full open reading frame cDNA clone RZPDo834E033D for gene VIM, vimentin complete cds, without stopcodon.
KU178388 - Homo sapiens vimentin isoform 1 (VIM) mRNA, partial cds.
KU178389 - Homo sapiens vimentin isoform 2 (VIM) mRNA, complete cds, alternatively spliced.
LF346169 - JP 2014500723-A/153672: Polycomb-Associated Non-Coding RNAs.
LF346170 - JP 2014500723-A/153673: Polycomb-Associated Non-Coding RNAs.
LF346172 - JP 2014500723-A/153675: Polycomb-Associated Non-Coding RNAs.
LF346174 - JP 2014500723-A/153677: Polycomb-Associated Non-Coding RNAs.
M25246 - Human vimentin (HuVim3) mRNA, 3' end.
LF346175 - JP 2014500723-A/153678: Polycomb-Associated Non-Coding RNAs.
AK093924 - Homo sapiens cDNA FLJ36605 fis, clone TRACH2015316.
LF346177 - JP 2014500723-A/153680: Polycomb-Associated Non-Coding RNAs.
LF346179 - JP 2014500723-A/153682: Polycomb-Associated Non-Coding RNAs.
LF346181 - JP 2014500723-A/153684: Polycomb-Associated Non-Coding RNAs.
LF346183 - JP 2014500723-A/153686: Polycomb-Associated Non-Coding RNAs.
LF346185 - JP 2014500723-A/153688: Polycomb-Associated Non-Coding RNAs.
LF346186 - JP 2014500723-A/153689: Polycomb-Associated Non-Coding RNAs.
LF346187 - JP 2014500723-A/153690: Polycomb-Associated Non-Coding RNAs.
BC031031 - Homo sapiens vimentin, mRNA (cDNA clone IMAGE:4731764), partial cds.
LF346188 - JP 2014500723-A/153691: Polycomb-Associated Non-Coding RNAs.
JD428844 - Sequence 409868 from Patent EP1572962.
LF346189 - JP 2014500723-A/153692: Polycomb-Associated Non-Coding RNAs.
JD372311 - Sequence 353335 from Patent EP1572962.
JD373073 - Sequence 354097 from Patent EP1572962.
JD250901 - Sequence 231925 from Patent EP1572962.
MA581744 - JP 2018138019-A/153670: Polycomb-Associated Non-Coding RNAs.
MA581746 - JP 2018138019-A/153672: Polycomb-Associated Non-Coding RNAs.
MA581747 - JP 2018138019-A/153673: Polycomb-Associated Non-Coding RNAs.
MA581749 - JP 2018138019-A/153675: Polycomb-Associated Non-Coding RNAs.
MA581751 - JP 2018138019-A/153677: Polycomb-Associated Non-Coding RNAs.
MA581752 - JP 2018138019-A/153678: Polycomb-Associated Non-Coding RNAs.
MA581754 - JP 2018138019-A/153680: Polycomb-Associated Non-Coding RNAs.
MA581756 - JP 2018138019-A/153682: Polycomb-Associated Non-Coding RNAs.
MA581758 - JP 2018138019-A/153684: Polycomb-Associated Non-Coding RNAs.
MA581760 - JP 2018138019-A/153686: Polycomb-Associated Non-Coding RNAs.
MA581762 - JP 2018138019-A/153688: Polycomb-Associated Non-Coding RNAs.
MA581763 - JP 2018138019-A/153689: Polycomb-Associated Non-Coding RNAs.
MA581764 - JP 2018138019-A/153690: Polycomb-Associated Non-Coding RNAs.
MA581765 - JP 2018138019-A/153691: Polycomb-Associated Non-Coding RNAs.
MA581766 - JP 2018138019-A/153692: Polycomb-Associated Non-Coding RNAs.
MA447365 - JP 2018138019-A/19291: Polycomb-Associated Non-Coding RNAs.
MA441124 - JP 2018138019-A/13050: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000544301.1, ENST00000544301.2, ENST00000544301.3, ENST00000544301.4, ENST00000544301.5, ENST00000544301.6, HEL113 , NM_003380, uc324vlm.1, uc324vlm.2, V9HWE1, V9HWE1_HUMAN, VIM
UCSC ID: ENST00000544301.7_6
RefSeq Accession: NM_003380.5

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.