Human Gene PXN (ENST00000323871.9) from GENCODE V44
  Description: paxillin (from HGNC PXN)
RefSeq Summary (NM_001080855): This gene encodes a cytoskeletal protein involved in actin-membrane attachment at sites of cell adhesion to the extracellular matrix (focal adhesion). Alternatively spliced transcript variants encoding different isoforms have been described for this gene. These isoforms exhibit different expression pattern, and have different biochemical, as well as physiological properties (PMID:9054445). [provided by RefSeq, Aug 2011].
Gencode Transcript: ENST00000323871.9
Gencode Gene: ENSG00000089159.17
Transcript (Including UTRs)
   Position: hg38 chr12:120,210,451-120,265,718 Size: 55,268 Total Exon Count: 14 Strand: -
Coding Region
   Position: hg38 chr12:120,216,712-120,265,629 Size: 48,918 Coding Exon Count: 8 

Page IndexSequence and LinksPrimersMalaCardsCTDRNA-Seq Expression
Microarray ExpressionRNA StructureOther SpeciesmRNA DescriptionsPathwaysOther Names
Methods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr12:120,210,451-120,265,718)mRNA (may differ from genome)Protein (706 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblExonPrimerGencodeGeneCardsHGNC
LynxMalacardsMGIPubMedUniProtKBWikipedia

-  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: PXN
Diseases sorted by gene-association score: cavernous malformation (7), breast adenocarcinoma (2), lung cancer (2), colorectal cancer (2), prostate cancer (2)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 82.42 RPKM in Whole Blood
Total median expression: 1458.66 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 -41.4089-0.465 Picture PostScript Text
3' UTR -1290.703247-0.398 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
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGD    
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Descriptions from all associated GenBank mRNAs
  BC006840 - Homo sapiens cDNA clone IMAGE:3450608.
BC015217 - Homo sapiens paxillin, mRNA (cDNA clone IMAGE:3852361).
BC010498 - Homo sapiens paxillin, mRNA (cDNA clone IMAGE:3448445).
BC003647 - Homo sapiens paxillin, mRNA (cDNA clone IMAGE:3534159), partial cds.
BX648777 - Homo sapiens mRNA; cDNA DKFZp686N21130 (from clone DKFZp686N21130).
AK128712 - Homo sapiens cDNA FLJ46879 fis, clone UTERU3015011, highly similar to Paxillin.
AK122964 - Homo sapiens cDNA FLJ16691 fis, clone TRACH3000692, highly similar to Paxillin.
AB209034 - Homo sapiens mRNA for Paxillin variant protein.
U14588 - Human paxillin mRNA, complete cds.
JD215434 - Sequence 196458 from Patent EP1572962.
JD365885 - Sequence 346909 from Patent EP1572962.
JD104566 - Sequence 85590 from Patent EP1572962.
JD069204 - Sequence 50228 from Patent EP1572962.
JD285723 - Sequence 266747 from Patent EP1572962.
JD166363 - Sequence 147387 from Patent EP1572962.
JD215852 - Sequence 196876 from Patent EP1572962.
JD277432 - Sequence 258456 from Patent EP1572962.
JD271726 - Sequence 252750 from Patent EP1572962.
JD259985 - Sequence 241009 from Patent EP1572962.
JD201058 - Sequence 182082 from Patent EP1572962.
JD300981 - Sequence 282005 from Patent EP1572962.
JD427488 - Sequence 408512 from Patent EP1572962.
JD245307 - Sequence 226331 from Patent EP1572962.
JD538994 - Sequence 520018 from Patent EP1572962.
JD502522 - Sequence 483546 from Patent EP1572962.
JD428726 - Sequence 409750 from Patent EP1572962.
BC136787 - Homo sapiens paxillin, mRNA (cDNA clone MGC:168400 IMAGE:9020777), complete cds.
BC136794 - Homo sapiens paxillin, mRNA (cDNA clone MGC:168407 IMAGE:9020784), complete cds.
BC144410 - Homo sapiens paxillin, mRNA (cDNA clone MGC:177948 IMAGE:9052931), complete cds.
AK298057 - Homo sapiens cDNA FLJ57756 complete cds, highly similar to Paxillin.
JD243075 - Sequence 224099 from Patent EP1572962.
JD253774 - Sequence 234798 from Patent EP1572962.
JD477457 - Sequence 458481 from Patent EP1572962.
JD271731 - Sequence 252755 from Patent EP1572962.
JD379547 - Sequence 360571 from Patent EP1572962.
JD516778 - Sequence 497802 from Patent EP1572962.
JD260001 - Sequence 241025 from Patent EP1572962.
JD252972 - Sequence 233996 from Patent EP1572962.
JD109115 - Sequence 90139 from Patent EP1572962.
AK299486 - Homo sapiens cDNA FLJ57182 complete cds, highly similar to Paxillin.
JD456730 - Sequence 437754 from Patent EP1572962.
JD355054 - Sequence 336078 from Patent EP1572962.
JD321318 - Sequence 302342 from Patent EP1572962.
JD261564 - Sequence 242588 from Patent EP1572962.
JD412431 - Sequence 393455 from Patent EP1572962.
HM005447 - Homo sapiens clone HTL-T-134 testicular tissue protein Li 134 mRNA, complete cds.
JD424432 - Sequence 405456 from Patent EP1572962.
D86862 - Homo sapiens mRNA for paxillin beta, complete cds.
D86863 - Homo sapiens mRNA for paxillin gamma, complete cds.
AK314204 - Homo sapiens cDNA, FLJ94932, Homo sapiens paxillin (PXN), mRNA.
KJ897432 - Synthetic construct Homo sapiens clone ccsbBroadEn_06826 PXN gene, encodes complete protein.
AB590484 - Synthetic construct DNA, clone: pFN21AE2012, Homo sapiens PXN gene for paxillin, without stop codon, in Flexi system.
MP014884 - Sequence 87 from Patent WO2019016252.
AK026695 - Homo sapiens cDNA: FLJ23042 fis, clone LNG02323.
BC052611 - Homo sapiens paxillin, mRNA (cDNA clone IMAGE:6252827), complete cds.
JD099648 - Sequence 80672 from Patent EP1572962.
JD408003 - Sequence 389027 from Patent EP1572962.
JD371137 - Sequence 352161 from Patent EP1572962.
JD451448 - Sequence 432472 from Patent EP1572962.
JD095100 - Sequence 76124 from Patent EP1572962.
JD335741 - Sequence 316765 from Patent EP1572962.
FW365445 - COMPOSITIONS AND METHODS FOR TREATING PATHOLOGIC ANGIOGENESIS AND VASCULAR PERMEABILITY.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04062 - Chemokine signaling pathway
hsa04370 - VEGF signaling pathway
hsa04510 - Focal adhesion
hsa04670 - Leukocyte transendothelial migration
hsa04810 - Regulation of actin cytoskeleton
hsa05100 - Bacterial invasion of epithelial cells

-  Other Names for This Gene
  Alternate Gene Symbols: A0A1B0GU60, AB209034, ENST00000323871.1, ENST00000323871.2, ENST00000323871.3, ENST00000323871.4, ENST00000323871.5, ENST00000323871.6, ENST00000323871.7, ENST00000323871.8, uc001txz.1, uc001txz.2, uc001txz.3, uc001txz.4, uc001txz.5
UCSC ID: ENST00000323871.9
RefSeq Accession: NM_001080855

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