Human Gene PITX2 (ENST00000616641.5) from GENCODE V44
  Description: paired like homeodomain 2 (from HGNC PITX2)
RefSeq Summary (NM_001204398): This gene encodes a member of the RIEG/PITX homeobox family, which is in the bicoid class of homeodomain proteins. The encoded protein acts as a transcription factor and regulates procollagen lysyl hydroxylase gene expression. This protein plays a role in the terminal differentiation of somatotroph and lactotroph cell phenotypes, is involved in the development of the eye, tooth and abdominal organs, and acts as a transcriptional regulator involved in basal and hormone-regulated activity of prolactin. Mutations in this gene are associated with Axenfeld-Rieger syndrome, iridogoniodysgenesis syndrome, and sporadic cases of Peters anomaly. A similar protein in other vertebrates is involved in the determination of left-right asymmetry during development. Alternatively spliced transcript variants encoding distinct isoforms have been described. [provided by RefSeq, Jul 2008].
Gencode Transcript: ENST00000616641.5
Gencode Gene: ENSG00000164093.18
Transcript (Including UTRs)
   Position: hg38 chr4:110,617,927-110,632,513 Size: 14,587 Total Exon Count: 3 Strand: -


Page IndexSequence and LinksPrimersMalaCardsCTDRNA-Seq Expression
Microarray ExpressionOther SpeciesmRNA DescriptionsPathwaysOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr4:110,617,927-110,632,513)mRNA (may differ from genome)No protein
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
EnsemblExonPrimerGencodeHGNCMalacardsPubMed
Wikipedia

-  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: PITX2
Diseases sorted by gene-association score: ring dermoid of cornea* (1679), axenfeld-rieger syndrome, type 1* (1329), anterior segment dysgenesis 4* (1247), axenfeld-rieger syndrome* (525), iris hypoplasia* (128), familial atrial fibrillation* (108), peters-plus syndrome* (65), aniridia (14), axenfeld-rieger syndrome, type 3 (12), cogan-reese syndrome (11), intestinal atresia (11), bardet-biedl syndrome 5 (9), autosomal dominant disease (8), anterior segment dysgenesis 1, multiple subtypes (8), fuchs' endothelial dystrophy (7), rieger syndrome, type 2 (7), early-onset glaucoma (7), juvenile glaucoma (7), hydrophthalmos (6), pigment dispersion syndrome (6), primary congenital glaucoma (6), tooth agenesis (5), glaucoma 3a, primary open angle, congenital, juvenile, or adult onset (5), transposition of the great arteries (5), iris disease (5), persistent hyperplastic primary vitreous (4), conotruncal heart malformations (4), visceral heterotaxy (4), heart disease (3), tetralogy of fallot (2), adamantinoma of long bones (2)
* = Manually curated disease association

-  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: 9.84 RPKM in Bladder
Total median expression: 42.32 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.

-  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
      
      
      
      
      

-  Descriptions from all associated GenBank mRNAs
  LF206336 - JP 2014500723-A/13839: Polycomb-Associated Non-Coding RNAs.
MA441913 - JP 2018138019-A/13839: Polycomb-Associated Non-Coding RNAs.
BC106010 - Homo sapiens paired-like homeodomain 2, mRNA (cDNA clone MGC:111022 IMAGE:3914727), complete cds.
AF048720 - Homo sapiens ALL1 responsive protein ARP1a (ARP1) mRNA, complete cds.
AF048721 - Homo sapiens ALL1 responsive protein ARP1b (ARP1) mRNA, complete cds.
U69961 - Homo sapiens solurshin (RGS) mRNA, complete cds.
AK127829 - Homo sapiens cDNA FLJ45932 fis, clone PLACE7002303, highly similar to Pituitary homeobox 2.
AK291591 - Homo sapiens cDNA FLJ77320 complete cds, highly similar to Homo sapiens paired-like homeodomain transcription factor 2 (PITX2), transcript variant 1, mRNA.
AF048722 - Homo sapiens ALL1 responsive protein ARP1c (ARP1) mRNA, complete cds.
BC013998 - Homo sapiens paired-like homeodomain 2, mRNA (cDNA clone MGC:20144 IMAGE:3937807), complete cds.
JD310685 - Sequence 291709 from Patent EP1572962.
JD062498 - Sequence 43522 from Patent EP1572962.
JD058560 - Sequence 39584 from Patent EP1572962.
LF353290 - JP 2014500723-A/160793: Polycomb-Associated Non-Coding RNAs.
MA588867 - JP 2018138019-A/160793: Polycomb-Associated Non-Coding RNAs.
JD241540 - Sequence 222564 from Patent EP1572962.
DQ896741 - Synthetic construct Homo sapiens clone IMAGE:100011201; FLH199420.01L; RZPDo839F1081D paired-like homeodomain transcription factor 2 (PITX2) gene, encodes complete protein.
AK313987 - Homo sapiens cDNA, FLJ94639, Homo sapiens paired-like homeodomain transcription factor 2(PITX2), transcript variant 3, mRNA.
KJ891816 - Synthetic construct Homo sapiens clone ccsbBroadEn_01210 PITX2 gene, encodes complete protein.
KR710426 - Synthetic construct Homo sapiens clone CCSBHm_00012480 PITX2 (PITX2) mRNA, encodes complete protein.
KR710427 - Synthetic construct Homo sapiens clone CCSBHm_00012484 PITX2 (PITX2) mRNA, encodes complete protein.
KR710428 - Synthetic construct Homo sapiens clone CCSBHm_00012488 PITX2 (PITX2) mRNA, encodes complete protein.
KR710429 - Synthetic construct Homo sapiens clone CCSBHm_00012499 PITX2 (PITX2) mRNA, encodes complete protein.
DQ893426 - Synthetic construct clone IMAGE:100006056; FLH199514.01X; RZPDo839F1082D paired-like homeodomain transcription factor 2 (PITX2) gene, encodes complete protein.
AB528392 - Synthetic construct DNA, clone: pF1KB7984, Homo sapiens PITX2 gene for paired-like homeodomain 2, without stop codon, in Flexi system.
CU680732 - Synthetic construct Homo sapiens gateway clone IMAGE:100018932 5' read PITX2 mRNA.
BC007987 - Homo sapiens protein phosphatase 1, regulatory (inhibitor) subunit 15A, mRNA (cDNA clone IMAGE:3028779), **** WARNING: chimeric clone ****.
LF211934 - JP 2014500723-A/19437: Polycomb-Associated Non-Coding RNAs.
MA447511 - JP 2018138019-A/19437: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  BioCarta from NCI Cancer Genome Anatomy Project
h_pitx2Pathway - Multi-step Regulation of Transcription by Pitx2

-  Other Names for This Gene
  Alternate Gene Symbols: AF048721, ENST00000616641.1, ENST00000616641.2, ENST00000616641.3, ENST00000616641.4, uc003iae.1, uc003iae.2, uc003iae.3, uc003iae.4, uc003iae.5
UCSC ID: ENST00000616641.5
RefSeq Accession: NM_001204398

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