PAX2 (paired box 2) - Rat Genome Database

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Gene: PAX2 (paired box 2) Sus scrofa
Analyze
Symbol: PAX2
Name: paired box 2
RGD ID: 14113510
Description: ENCODES a protein that exhibits C2H2 zinc finger domain binding (ortholog); cis-regulatory region sequence-specific DNA binding (ortholog); DNA-binding transcription factor activity (ortholog); INVOLVED IN aging (ortholog); brain morphogenesis (ortholog); branching involved in ureteric bud morphogenesis (ortholog); ASSOCIATED WITH CAKUT (ortholog); cystic kidney disease (ortholog); Diabetic Nephropathies (ortholog); FOUND IN lysosome (ortholog); microtubule organizing center (ortholog); nucleus (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Also known as: paired box protein Pax-2
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl14111,834,168 - 111,914,304 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.114111,822,334 - 111,914,950 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.214121,481,577 - 121,574,679 (+)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
aging  (ISO)
anatomical structure development  (IBA)
brain morphogenesis  (ISO)
branching involved in ureteric bud morphogenesis  (IEA,ISO)
camera-type eye development  (ISO)
cell fate determination  (ISO)
cellular response to epidermal growth factor stimulus  (ISO)
cellular response to glucose stimulus  (ISO)
cellular response to hydrogen peroxide  (ISO)
cellular response to mechanical stimulus  (ISO)
cellular response to retinoic acid  (ISO)
central nervous system development  (ISO)
cochlea development  (ISO)
cochlea morphogenesis  (ISO)
glial cell differentiation  (ISO)
inner ear morphogenesis  (ISO)
kidney development  (ISO)
mesenchymal to epithelial transition  (ISO)
mesenchymal to epithelial transition involved in metanephros morphogenesis  (ISO)
mesodermal cell fate specification  (ISO)
mesonephric duct development  (ISO)
mesonephric tubule development  (ISO)
mesonephric tubule formation  (ISO)
mesonephros development  (ISO)
metanephric collecting duct development  (ISO)
metanephric distal convoluted tubule development  (ISO)
metanephric epithelium development  (IEA,ISO)
metanephric mesenchymal cell differentiation  (ISO)
metanephric mesenchyme development  (ISO)
metanephric nephron tubule formation  (ISO)
metanephros development  (ISO)
negative regulation of apoptotic process  (ISO)
negative regulation of apoptotic process involved in metanephric collecting duct development  (ISO)
negative regulation of apoptotic process involved in metanephric nephron tubule development  (ISO)
negative regulation of cysteine-type endopeptidase activity involved in apoptotic process  (IEA)
negative regulation of mesenchymal cell apoptotic process involved in metanephric nephron morphogenesis  (ISO)
negative regulation of mesenchymal cell apoptotic process involved in metanephros development  (ISO)
negative regulation of programmed cell death  (ISO)
negative regulation of reactive oxygen species metabolic process  (IEA)
negative regulation of transcription by RNA polymerase II  (ISO)
negative regulation of transcription, DNA-templated  (IEA)
nephric duct formation  (ISO)
neural tube closure  (ISO)
optic chiasma development  (ISO)
optic cup morphogenesis involved in camera-type eye development  (ISO)
optic nerve development  (ISO)
optic nerve morphogenesis  (ISO)
optic nerve structural organization  (ISO)
pancreas development  (ISO)
paramesonephric duct development  (ISO)
positive regulation of branching involved in ureteric bud morphogenesis  (ISO)
positive regulation of cell population proliferation  (ISO)
positive regulation of epithelial cell proliferation  (IEA)
positive regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis  (ISO)
positive regulation of metanephric DCT cell differentiation  (ISO)
positive regulation of metanephric glomerulus development  (ISO)
positive regulation of optic nerve formation  (ISO)
positive regulation of transcription by RNA polymerase II  (IEA,ISO)
positive regulation of transcription, DNA-templated  (ISO)
pronephric field specification  (ISO)
pronephros development  (ISO)
protein kinase B signaling  (ISO)
reactive oxygen species metabolic process  (ISO)
regulation of apoptotic process  (ISO)
regulation of metanephric nephron tubule epithelial cell differentiation  (ISO)
regulation of metanephros size  (IEA)
regulation of programmed cell death  (ISO)
regulation of transcription by RNA polymerase II  (IBA)
regulation of transcription, DNA-templated  (IEA)
response to nutrient levels  (ISO)
retinal pigment epithelium development  (ISO)
stem cell differentiation  (ISO)
ureter development  (ISO)
ureter maturation  (ISO)
ureter morphogenesis  (ISO)
ureteric bud development  (ISO)
urogenital system development  (ISO)
vestibulocochlear nerve formation  (ISO)

Cellular Component

References

Genomics

Comparative Map Data
PAX2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl14111,834,168 - 111,914,304 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.114111,822,334 - 111,914,950 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.214121,481,577 - 121,574,679 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PAX2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl10100,735,396 - 100,829,944 (+)EnsemblGRCh38hg38GRCh38
GRCh3810100,735,396 - 100,829,944 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh3710102,495,153 - 102,589,701 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3610102,495,458 - 102,579,688 (+)NCBINCBI36hg18NCBI36
Build 3410102,495,321 - 102,579,687NCBI
Celera1096,243,249 - 96,327,456 (+)NCBI
Cytogenetic Map10q24.31NCBI
HuRef1096,133,870 - 96,218,089 (+)NCBIHuRef
CHM1_110102,789,756 - 102,873,990 (+)NCBICHM1_1
Pax2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391944,735,040 - 44,826,708 (+)NCBIGRCm39mm39
GRCm39 Ensembl1944,744,484 - 44,826,310 (+)Ensembl
GRCm381944,746,601 - 44,838,269 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1944,756,045 - 44,837,871 (+)EnsemblGRCm38mm10GRCm38
MGSCv371944,831,884 - 44,910,517 (+)NCBIGRCm37mm9NCBIm37
MGSCv361944,810,705 - 44,889,338 (+)NCBImm8
Celera1945,528,146 - 45,605,640 (+)NCBICelera
Cytogenetic Map19C3NCBI
cM Map1938.09NCBI
Pax2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21243,616,509 - 243,697,454 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1243,616,606 - 243,695,321 (+)Ensembl
Rnor_6.01264,493,579 - 264,585,073 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1264,504,591 - 264,583,329 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01271,936,269 - 272,027,514 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41249,804,055 - 249,895,306 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11250,026,899 - 250,155,758 (+)NCBI
Celera1239,428,164 - 239,506,765 (+)NCBICelera
Cytogenetic Map1q54NCBI
Pax2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554859,350,087 - 9,430,607 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554859,351,913 - 9,430,607 (-)NCBIChiLan1.0ChiLan1.0
PAX2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.110100,822,676 - 100,904,065 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl10100,822,676 - 100,904,028 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01097,344,978 - 97,429,086 (+)NCBIMhudiblu_PPA_v0panPan3
PAX2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12813,442,894 - 13,519,853 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2813,442,893 - 13,532,094 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2813,606,001 - 13,692,205 (+)NCBI
ROS_Cfam_1.02813,904,432 - 13,990,703 (+)NCBI
UMICH_Zoey_3.12813,450,612 - 13,536,833 (+)NCBI
UNSW_CanFamBas_1.02813,492,258 - 13,578,015 (+)NCBI
UU_Cfam_GSD_1.02813,623,521 - 13,709,771 (+)NCBI
Pax2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721333,215,941 - 33,325,282 (-)NCBI
SpeTri2.0NW_0049366004,850,594 - 4,939,010 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LOC103216393
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1993,763,975 - 93,847,180 (+)NCBIChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604854,813,496 - 54,880,591 (+)NCBIVero_WHO_p1.0
Pax2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624831375,851 - 453,968 (+)NCBIHetGla_female_1.0hetGla2


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

nervous system renal system reproductive system
High
Medium 1
Low 1 2 1
Below cutoff 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000041407   ⟹   ENSSSCP00000032247
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl14111,834,168 - 111,914,237 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000061285   ⟹   ENSSSCP00000031239
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl14111,834,168 - 111,914,304 (+)Ensembl
RefSeq Acc Id: XM_003359329   ⟹   XP_003359377
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.114111,822,335 - 111,914,950 (+)NCBI
Sequence:
RefSeq Acc Id: XM_003359330   ⟹   XP_003359378
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.114111,822,339 - 111,914,950 (+)NCBI
Sequence:
RefSeq Acc Id: XM_003359332   ⟹   XP_003359380
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.114111,822,338 - 111,914,950 (+)NCBI
Sequence:
RefSeq Acc Id: XM_005671388   ⟹   XP_005671445
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.114111,822,334 - 111,914,950 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013983669   ⟹   XP_013839123
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.114111,822,334 - 111,914,950 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021072681   ⟹   XP_020928340
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.114111,822,335 - 111,914,950 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021072682   ⟹   XP_020928341
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.114111,822,339 - 111,914,950 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: XP_005671445   ⟸   XM_005671388
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_013839123   ⟸   XM_013983669
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_003359377   ⟸   XM_003359329
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_020928340   ⟸   XM_021072681
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_003359380   ⟸   XM_003359332
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_003359378   ⟸   XM_003359330
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_020928341   ⟸   XM_021072682
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: ENSSSCP00000032247   ⟸   ENSSSCT00000041407
RefSeq Acc Id: ENSSSCP00000031239   ⟸   ENSSSCT00000061285
Protein Domains
Paired


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000010556 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSSSCP00000031239 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCP00000032247 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000041407 UniProtKB/TrEMBL
  ENSSSCT00000061285 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 1.10.10.10 UniProtKB/TrEMBL
InterPro Homeobox-like_sf UniProtKB/TrEMBL
  PAIRED_DNA_bd_dom UniProtKB/TrEMBL
  Paired_dom UniProtKB/TrEMBL
  Pax2_C UniProtKB/TrEMBL
  PAX_fam UniProtKB/TrEMBL
  WH-like_DNA-bd_sf UniProtKB/TrEMBL
NCBI Gene PAX2 ENTREZGENE
PANTHER PTHR45636 UniProtKB/TrEMBL
Pfam PAX UniProtKB/TrEMBL
  Pax2_C UniProtKB/TrEMBL
PRINTS PAIREDBOX UniProtKB/TrEMBL
PROSITE PAIRED_1 UniProtKB/TrEMBL
  PAIRED_2 UniProtKB/TrEMBL
SMART PAX UniProtKB/TrEMBL
Superfamily-SCOP SSF46689 UniProtKB/TrEMBL
UniProt A0A286ZI72_PIG UniProtKB/TrEMBL
  A0A286ZKX1_PIG UniProtKB/TrEMBL
VGNC ID VGNC:91192 ENTREZGENE