Pax9 (paired box 9) - Rat Genome Database

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Gene: Pax9 (paired box 9) Chinchilla lanigera
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Symbol: Pax9
Name: paired box 9
RGD ID: 8797975
Description: ENCODES a protein that exhibits DNA-binding transcription activator activity, RNA polymerase II-specific (ortholog); RNA polymerase II transcription regulatory region sequence-specific DNA binding (ortholog); sequence-specific double-stranded DNA binding (ortholog); INVOLVED IN cellular response to growth factor stimulus (ortholog); endoderm development (ortholog); face morphogenesis (ortholog); ASSOCIATED WITH anodontia (ortholog); Brain-Lung-Thyroid Syndrome (ortholog); choreatic disease (ortholog); FOUND IN nucleolus (ortholog); nucleoplasm (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: paired box protein Pax-9
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540924,424,343 - 24,444,040 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540924,401,599 - 24,443,687 (-)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
2. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
Pax9
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540924,424,343 - 24,444,040 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540924,401,599 - 24,443,687 (-)NCBIChiLan1.0ChiLan1.0
PAX9
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381436,657,568 - 36,679,362 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1436,657,568 - 36,679,362 (+)EnsemblGRCh38hg38GRCh38
GRCh371437,126,773 - 37,148,567 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361436,196,533 - 36,216,763 (+)NCBINCBI36Build 36hg18NCBI36
Build 341436,200,655 - 36,215,621NCBI
Celera1416,990,297 - 17,010,560 (+)NCBICelera
Cytogenetic Map14q13.3NCBI
HuRef1417,241,127 - 17,261,385 (+)NCBIHuRef
CHM1_11437,125,895 - 37,146,158 (+)NCBICHM1_1
T2T-CHM13v2.01430,846,888 - 30,868,704 (+)NCBIT2T-CHM13v2.0
Pax9
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391256,738,478 - 56,759,609 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1256,738,552 - 56,759,607 (+)EnsemblGRCm39 Ensembl
GRCm381256,691,693 - 56,712,824 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1256,691,767 - 56,712,822 (+)EnsemblGRCm38mm10GRCm38
MGSCv371257,796,626 - 57,812,217 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361257,613,651 - 57,629,242 (+)NCBIMGSCv36mm8
Celera1257,861,482 - 57,877,076 (+)NCBICelera
Cytogenetic Map12C1NCBI
cM Map1224.53NCBI
Pax9
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8679,917,466 - 79,938,551 (+)NCBIGRCr8
mRatBN7.2674,186,749 - 74,203,508 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl674,182,568 - 74,203,506 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx674,600,161 - 74,616,896 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0674,899,473 - 74,916,209 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0674,326,950 - 74,343,674 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0677,607,705 - 77,624,453 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl677,608,624 - 77,621,719 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0687,133,943 - 87,150,691 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4677,107,768 - 77,124,520 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera672,993,727 - 73,010,469 (+)NCBICelera
Cytogenetic Map6q23NCBI
PAX9
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21537,873,397 - 37,993,055 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11437,090,066 - 37,207,404 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01417,114,975 - 17,431,786 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11435,771,454 - 35,791,697 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1435,771,454 - 35,791,697 (+)Ensemblpanpan1.1panPan2
PAX9
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1815,221,852 - 15,239,629 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl815,221,730 - 15,239,099 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha815,017,315 - 15,039,336 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0815,329,659 - 15,351,686 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl815,329,498 - 15,348,689 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1815,027,510 - 15,049,518 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0815,094,578 - 15,116,598 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0815,384,554 - 15,406,581 (+)NCBIUU_Cfam_GSD_1.0
Pax9
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864047,148,014 - 47,167,288 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493649410,658,077 - 10,672,251 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493649410,657,902 - 10,673,176 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PAX9
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl763,324,711 - 63,346,310 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1763,324,709 - 63,346,326 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2768,235,727 - 68,254,634 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PAX9
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12413,454,839 - 13,470,564 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2413,455,589 - 13,473,505 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660532,454,784 - 2,471,998 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pax9
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624838133,476 - 149,636 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624838129,725 - 147,572 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


RefSeq Acc Id: ENSCLAT00000021011   ⟹   ENSCLAP00000020811
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495540924,424,343 - 24,440,162 (-)Ensembl
RefSeq Acc Id: ENSCLAT00000021012   ⟹   ENSCLAP00000020812
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495540924,425,818 - 24,444,040 (-)Ensembl
RefSeq Acc Id: XM_005376908   ⟹   XP_005376965
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495540924,418,111 - 24,443,687 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013510360   ⟹   XP_013365814
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495540924,418,111 - 24,442,934 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013510361   ⟹   XP_013365815
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495540924,418,113 - 24,439,962 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013510362   ⟹   XP_013365816
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495540924,401,599 - 24,439,962 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013510363   ⟹   XP_013365817
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495540924,424,343 - 24,439,962 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013510364   ⟹   XP_013365818
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495540924,424,343 - 24,439,962 (-)NCBI
Sequence:
RefSeq Acc Id: XP_005376965   ⟸   XM_005376908
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_013365816   ⟸   XM_013510362
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_013365814   ⟸   XM_013510360
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_013365815   ⟸   XM_013510361
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_013365818   ⟸   XM_013510364
- Peptide Label: isoform X5
- UniProtKB: A0A8C2VUR7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013365817   ⟸   XM_013510363
- Peptide Label: isoform X4
- UniProtKB: A0A8C2VUF7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCLAP00000020811   ⟸   ENSCLAT00000021011
RefSeq Acc Id: ENSCLAP00000020812   ⟸   ENSCLAT00000021012
Protein Domains
Paired


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000014256 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000021011 ENTREZGENE
  ENSCLAT00000021011.1 UniProtKB/TrEMBL
  ENSCLAT00000021012 ENTREZGENE
  ENSCLAT00000021012.1 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
  PAX_fam UniProtKB/TrEMBL
  WH-like_DNA-bd_sf UniProtKB/TrEMBL
NCBI Gene Pax9 ENTREZGENE
PANTHER PTHR45636 UniProtKB/TrEMBL
  PTHR45636:SF13 UniProtKB/TrEMBL
Pfam PAX 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 A0A8C2VUF7 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C2VUR7 ENTREZGENE, UniProtKB/TrEMBL