Human Gene PARVG (uc003bep.4)
  Description: Homo sapiens parvin, gamma (PARVG), transcript variant 1, mRNA.
RefSeq Summary (NM_022141): Members of the parvin family, including PARVG, are actin-binding proteins associated with focal contacts.[supplied by OMIM, Aug 2004].
Transcript (Including UTRs)
   Position: hg19 chr22:44,576,770-44,604,349 Size: 27,580 Total Exon Count: 14 Strand: +
Coding Region
   Position: hg19 chr22:44,579,210-44,602,306 Size: 23,097 Coding Exon Count: 12 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr22:44,576,770-44,604,349)mRNA (may differ from genome)Protein (331 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: PARVG_HUMAN
DESCRIPTION: RecName: Full=Gamma-parvin;
FUNCTION: Probably plays a role in the regulation of cell adhesion and cytoskeleton organization (By similarity).
SUBUNIT: Interacts with integrin-linked protein kinase and actin (By similarity).
SUBCELLULAR LOCATION: Cell junction, focal adhesion. Cell membrane; Peripheral membrane protein; Cytoplasmic side (By similarity). Cytoplasm, cytoskeleton (By similarity). Note=Constituent of focal adhesions (By similarity).
TISSUE SPECIFICITY: Expressed predominantly in lymphoid organs, including spleen, thymus, lymph node, bone marrow and peripheral blood leukocytes and moderately in the digestive tract, including stomach, duodenum, jejunum, ileum, ileocecum and appendix, as well as in lung and liver. Also expressed in tumors, but at a lower level than in the corresponding normal tissues.
SIMILARITY: Belongs to the parvin family.
SIMILARITY: Contains 2 CH (calponin-homology) domains.

-  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


-  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: 39.70 RPKM in Spleen
Total median expression: 174.71 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 -160.72484-0.332 Picture PostScript Text
3' UTR -931.442043-0.456 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.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR001715 - CH-domain

Pfam Domains:
PF00307 - Calponin homology (CH) domain

SCOP Domains:
47576 - Calponin-homology domain, CH-domain

ModBase Predicted Comparative 3D Structure on Q9HBI0
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  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 orthologGenome BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
  Ensembl   
  Protein Sequence   
  Alignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003779 actin binding
GO:0005515 protein binding

Biological Process:
GO:0007155 cell adhesion
GO:0007160 cell-matrix adhesion
GO:0031532 actin cytoskeleton reorganization

Cellular Component:
GO:0005737 cytoplasm
GO:0005856 cytoskeleton
GO:0005886 plasma membrane
GO:0005925 focal adhesion
GO:0016020 membrane
GO:0030054 cell junction


-  Descriptions from all associated GenBank mRNAs
  AK309348 - Homo sapiens cDNA, FLJ99389.
AK293360 - Homo sapiens cDNA FLJ60417 complete cds, weakly similar to Gamma-parvin.
AK225929 - Homo sapiens mRNA for parvin, gamma variant, clone: FCC117F03.
AK307294 - Homo sapiens cDNA, FLJ97242.
BC034406 - Homo sapiens parvin, gamma, mRNA (cDNA clone MGC:35319 IMAGE:5178529), complete cds.
AF237772 - Homo sapiens gamma-parvin (PARVG) mRNA, complete cds.
JD268843 - Sequence 249867 from Patent EP1572962.
JD556686 - Sequence 537710 from Patent EP1572962.
JD491687 - Sequence 472711 from Patent EP1572962.
JD124268 - Sequence 105292 from Patent EP1572962.
AK307299 - Homo sapiens cDNA, FLJ97247.
AK311264 - Homo sapiens cDNA, FLJ18306.
AL355092 - Novel human gene mapping to chomosome 22.
JD395208 - Sequence 376232 from Patent EP1572962.
JD495838 - Sequence 476862 from Patent EP1572962.
JD106489 - Sequence 87513 from Patent EP1572962.
CR456480 - Homo sapiens dJ671O14.2 full length open reading frame (ORF) cDNA clone (cDNA clone C22ORF:pGEM.dJ671O14.2).
AK310087 - Homo sapiens cDNA, FLJ17129.
AL590887 - Novel human CDS from chromosome 22, splice variant of Homo sapiens gamma-parvin (PARVG) mRNA (AF237772).
AB528203 - Synthetic construct DNA, clone: pF1KE0513, Homo sapiens PARVG gene for parvin, gamma, without stop codon, in Flexi system.
CU013318 - Homo sapiens PARVG, mRNA (cDNA clone IMAGE:100000192), complete cds, without stop codon, in Gateway system.
KJ899438 - Synthetic construct Homo sapiens clone ccsbBroadEn_08832 PARVG gene, encodes complete protein.
CU013030 - Homo sapiens PARVG, mRNA (cDNA clone IMAGE:100000288), complete cds, with stop codon, in Gateway system.
CU689882 - Synthetic construct Homo sapiens gateway clone IMAGE:100023221 5' read PARVG mRNA.
BX648942 - Homo sapiens mRNA; cDNA DKFZp686A2248 (from clone DKFZp686A2248).
JD335262 - Sequence 316286 from Patent EP1572962.
JD457040 - Sequence 438064 from Patent EP1572962.
JD387845 - Sequence 368869 from Patent EP1572962.
JD183410 - Sequence 164434 from Patent EP1572962.
JD564640 - Sequence 545664 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04510 - Focal adhesion

-  Other Names for This Gene
  Alternate Gene Symbols: NM_022141, NP_071424, PARVG_HUMAN, Q9BQX5, Q9HBI0, Q9NSG1, uc003bep.3
UCSC ID: uc003bep.4
RefSeq Accession: NM_022141
Protein: Q9HBI0 (aka PARVG_HUMAN or PAVG_HUMAN)
CCDS: CCDS14057.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_022141.6
exon count: 14CDS single in 3' UTR: no RNA size: 3535
ORF size: 996CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1954.00frame shift in genome: no % Coverage: 99.66
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
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.