PITX2 (paired like homeodomain 2) - Rat Genome Database

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Gene: PITX2 (paired like homeodomain 2) Canis lupus familiaris
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Symbol: PITX2
Name: paired like homeodomain 2
RGD ID: 12224032
Description: ENCODES a protein that exhibits chromatin binding (ortholog); chromatin DNA binding (ortholog); DNA binding (ortholog); INVOLVED IN anatomical structure morphogenesis (ortholog); animal organ morphogenesis (ortholog); atrial cardiac muscle tissue morphogenesis (ortholog); ASSOCIATED WITH anterior segment dysgenesis (ortholog); anterior segment dysgenesis 1 (ortholog); anterior segment dysgenesis 4 (ortholog); FOUND IN cytoplasm (ortholog); nucleoplasm (ortholog); nucleus (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Also known as: paired-like homeodomain transcription factor 2; pituitary homeobox 2
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13230,710,161 - 30,730,162 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3230,710,685 - 30,730,273 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3211,306,508 - 11,326,539 (+)NCBI
ROS_Cfam_1.03230,931,178 - 30,951,191 (-)NCBI
UMICH_Zoey_3.13230,916,988 - 30,937,021 (-)NCBI
UNSW_CanFamBas_1.03230,667,533 - 30,687,592 (-)NCBI
UU_Cfam_GSD_1.0329,167,168 - 9,187,192 (+)NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
anatomical structure morphogenesis  (IBA,ISO)
animal organ morphogenesis  (ISO)
atrial cardiac muscle tissue morphogenesis  (ISO)
atrioventricular valve development  (ISO)
brain development  (ISO)
branching involved in blood vessel morphogenesis  (ISO)
camera-type eye development  (ISO)
cardiac muscle cell differentiation  (ISO)
cardiac muscle tissue development  (ISO)
cardiac neural crest cell migration involved in outflow tract morphogenesis  (ISO)
cell proliferation involved in outflow tract morphogenesis  (ISO)
deltoid tuberosity development  (ISO)
determination of left/right symmetry  (ISO)
digestive system development  (ISO)
embryonic camera-type eye development  (ISO)
embryonic digestive tract morphogenesis  (ISO)
embryonic heart tube left/right pattern formation  (ISO)
embryonic hindlimb morphogenesis  (ISO)
endodermal digestive tract morphogenesis  (ISO)
extraocular skeletal muscle development  (ISO)
female gonad development  (ISO)
heart development  (ISO)
hypothalamus cell migration  (ISO)
in utero embryonic development  (ISO)
iris morphogenesis  (ISO)
left lung morphogenesis  (ISO)
left/right axis specification  (ISO)
lung development  (ISO)
male gonad development  (ISO)
myoblast fusion  (ISO)
negative regulation of transcription by RNA polymerase II  (ISO)
neuron differentiation  (ISO)
neuron migration  (ISO)
odontogenesis  (ISO)
odontogenesis of dentin-containing tooth  (ISO)
pituitary gland development  (ISO)
positive regulation of DNA binding  (ISO)
positive regulation of myoblast proliferation  (ISO)
positive regulation of transcription by RNA polymerase II  (ISO)
positive regulation of transcription, DNA-templated  (ISO)
pulmonary myocardium development  (ISO)
pulmonary vein morphogenesis  (ISO)
regulation of cell migration  (ISO)
regulation of cell population proliferation  (ISO)
regulation of transcription by RNA polymerase II  (IBA,ISO)
regulation of transcription, DNA-templated  (ISO)
response to hormone  (ISO)
response to vitamin A  (ISO)
skeletal muscle tissue development  (ISO)
spleen development  (ISO)
subthalamic nucleus development  (ISO)
superior vena cava morphogenesis  (ISO)
vascular associated smooth muscle cell differentiation  (ISO)
vasculogenesis  (ISO)
ventricular cardiac muscle cell development  (ISO)
ventricular septum morphogenesis  (ISO)
Wnt signaling pathway  (ISO)

Cellular Component

References

Genomics

Comparative Map Data
PITX2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13230,710,161 - 30,730,162 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3230,710,685 - 30,730,273 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3211,306,508 - 11,326,539 (+)NCBI
ROS_Cfam_1.03230,931,178 - 30,951,191 (-)NCBI
UMICH_Zoey_3.13230,916,988 - 30,937,021 (-)NCBI
UNSW_CanFamBas_1.03230,667,533 - 30,687,592 (-)NCBI
UU_Cfam_GSD_1.0329,167,168 - 9,187,192 (+)NCBI
PITX2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl4110,617,423 - 110,642,123 (-)EnsemblGRCh38hg38GRCh38
GRCh384110,617,423 - 110,642,123 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh374111,538,579 - 111,563,279 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 364111,758,028 - 111,777,957 (-)NCBINCBI36hg18NCBI36
Build 344111,896,185 - 111,916,112NCBI
Celera4108,832,403 - 108,852,329 (-)NCBI
Cytogenetic Map4q25NCBI
HuRef4107,270,120 - 107,294,817 (-)NCBIHuRef
CHM1_14111,515,486 - 111,540,182 (-)NCBICHM1_1
Pitx2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm393128,993,527 - 129,013,243 (+)NCBIGRCm39mm39
GRCm39 Ensembl3128,993,527 - 129,013,240 (+)Ensembl
GRCm383129,199,878 - 129,219,594 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl3129,199,878 - 129,219,591 (+)EnsemblGRCm38mm10GRCm38
MGSCv373128,902,836 - 128,922,509 (+)NCBIGRCm37mm9NCBIm37
MGSCv363129,191,965 - 129,211,613 (+)NCBImm8
Celera3135,706,515 - 135,726,130 (+)NCBICelera
Cytogenetic Map3G3NCBI
cM Map357.84NCBI
Pitx2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22217,717,738 - 217,737,293 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl2217,717,693 - 217,737,293 (+)Ensembl
Rnor_6.02233,602,732 - 233,621,059 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2233,602,732 - 233,621,129 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02252,929,195 - 252,948,179 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42226,581,170 - 226,601,319 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12226,567,811 - 226,587,999 (+)NCBI
Celera2210,013,296 - 210,033,592 (+)NCBICelera
Cytogenetic Map2q42NCBI
Pitx2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545715,803,219 - 15,823,310 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495545715,803,493 - 15,823,193 (+)NCBIChiLan1.0ChiLan1.0
PITX2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.14113,676,846 - 113,696,518 (-)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v04103,112,624 - 103,137,356 (-)NCBIMhudiblu_PPA_v0panPan3
Pitx2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530110,214,001 - 10,237,701 (+)NCBI
SpeTri2.0NW_0049365631,713,294 - 1,732,431 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PITX2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl8111,698,664 - 111,723,298 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.18111,697,364 - 111,723,295 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.28119,906,708 - 119,926,114 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PITX2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1758,501,669 - 58,526,413 (-)NCBI
ChlSab1.1 Ensembl758,501,559 - 58,507,318 (-)Ensembl
Vero_WHO_p1.0NW_02366603737,182,289 - 37,203,030 (-)NCBI
Pitx2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248384,872,279 - 4,889,780 (-)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 exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system adipose tissue
High
Medium 6 1 6
Low 2 5 8 1
Below cutoff 5 5 16 6 6 6 4 6 10 5

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_003434038 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_003434039 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038444381 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038444382 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038444383 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038518769 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038518770 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038518771 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038581896 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038581897 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038581898 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038646716 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038646717 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038646718 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_846277 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AAEX04000032 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAHUQ010000323 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAQRD010000077 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAUVH010000366 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  REHQ01000032 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSCAFT00000018452   ⟹   ENSCAFP00000017091
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl3230,710,685 - 30,715,217 (-)Ensembl
RefSeq Acc Id: ENSCAFT00000067058   ⟹   ENSCAFP00000058095
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl3230,710,685 - 30,730,273 (-)Ensembl
RefSeq Acc Id: ENSCAFT00000084576   ⟹   ENSCAFP00000059724
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl3230,710,685 - 30,725,981 (-)Ensembl
RefSeq Acc Id: ENSCAFT00000090792   ⟹   ENSCAFP00000048396
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl3230,710,685 - 30,730,273 (-)Ensembl
RefSeq Acc Id: XM_003434038   ⟹   XP_003434086
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.13230,710,161 - 30,730,162 (-)NCBI
Dog10K_Boxer_Tasha3211,306,508 - 11,326,539 (+)NCBI
Sequence:
RefSeq Acc Id: XM_003434039   ⟹   XP_003434087
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.13230,710,161 - 30,730,160 (-)NCBI
Dog10K_Boxer_Tasha3211,306,509 - 11,326,539 (+)NCBI
Sequence:
RefSeq Acc Id: XM_038444381   ⟹   XP_038300309
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.03230,931,178 - 30,936,554 (-)NCBI
RefSeq Acc Id: XM_038444382   ⟹   XP_038300310
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.03230,931,178 - 30,951,191 (-)NCBI
RefSeq Acc Id: XM_038444383   ⟹   XP_038300311
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.03230,931,178 - 30,951,191 (-)NCBI
RefSeq Acc Id: XM_038518769   ⟹   XP_038374697
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.13230,916,988 - 30,922,362 (-)NCBI
RefSeq Acc Id: XM_038518770   ⟹   XP_038374698
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.13230,916,988 - 30,937,021 (-)NCBI
RefSeq Acc Id: XM_038518771   ⟹   XP_038374699
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.13230,916,988 - 30,937,021 (-)NCBI
RefSeq Acc Id: XM_038581896   ⟹   XP_038437824
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0329,181,813 - 9,187,192 (+)NCBI
RefSeq Acc Id: XM_038581897   ⟹   XP_038437825
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0329,167,168 - 9,187,192 (+)NCBI
RefSeq Acc Id: XM_038581898   ⟹   XP_038437826
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0329,167,169 - 9,187,192 (+)NCBI
RefSeq Acc Id: XM_038646716   ⟹   XP_038502644
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.03230,667,533 - 30,672,913 (-)NCBI
RefSeq Acc Id: XM_038646717   ⟹   XP_038502645
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.03230,667,533 - 30,687,592 (-)NCBI
RefSeq Acc Id: XM_038646718   ⟹   XP_038502646
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.03230,667,533 - 30,687,592 (-)NCBI
RefSeq Acc Id: XM_846277   ⟹   XP_851370
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.13230,710,161 - 30,715,653 (-)NCBI
Dog10K_Boxer_Tasha3211,321,160 - 11,326,539 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: XP_003434087   ⟸   XM_003434039
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_003434086   ⟸   XM_003434038
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_851370   ⟸   XM_846277
- Peptide Label: isoform X1
- UniProtKB: E2R5R2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000059724   ⟸   ENSCAFT00000084576
RefSeq Acc Id: ENSCAFP00000058095   ⟸   ENSCAFT00000067058
RefSeq Acc Id: ENSCAFP00000017091   ⟸   ENSCAFT00000018452
RefSeq Acc Id: ENSCAFP00000048396   ⟸   ENSCAFT00000090792
RefSeq Acc Id: XP_038374699   ⟸   XM_038518771
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038374698   ⟸   XM_038518770
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038374697   ⟸   XM_038518769
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038502646   ⟸   XM_038646718
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038502645   ⟸   XM_038646717
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038502644   ⟸   XM_038646716
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038300311   ⟸   XM_038444383
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038300310   ⟸   XM_038444382
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038300309   ⟸   XM_038444381
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038437825   ⟸   XM_038581897
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038437826   ⟸   XM_038581898
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038437824   ⟸   XM_038581896
- Peptide Label: isoform X1

Promoters
RGD ID:13688754
Promoter ID:EPDNEW_C6821
Type:single initiation site
Name:PITX2_1
Description:paired like homeodomain 2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.13230,715,829 - 30,715,889EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000011628 Ensembl, ENTREZGENE
Ensembl Protein ENSCAFP00000017091 ENTREZGENE
  ENSCAFP00000048396 ENTREZGENE
  ENSCAFP00000058095 ENTREZGENE
NCBI Gene PITX2 ENTREZGENE
UniProt E2R5R2 ENTREZGENE
VGNC ID VGNC:44590 ENTREZGENE