PAX4 (paired box 4) - Rat Genome Database

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Gene: PAX4 (paired box 4) Chlorocebus sabaeus
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Symbol: PAX4
Name: paired box 4
RGD ID: 18547001
Description: ENCODES a protein that exhibits DNA-binding transcription repressor activity, RNA polymerase II-specific (ortholog); double-stranded DNA binding (ortholog); sequence-specific double-stranded DNA binding (ortholog); INVOLVED IN circadian rhythm (ortholog); negative regulation of apoptotic process (ortholog); negative regulation of DNA-templated transcription (ortholog); ASSOCIATED WITH diabetes mellitus (ortholog); diabetic ketoacidosis (ortholog); genetic disease (ortholog); FOUND IN nucleus (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: paired box protein Pax-4
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12196,425,496 - 96,435,846 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2196,425,656 - 96,429,874 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660426,977,047 - 6,981,546 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
PAX4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12196,425,496 - 96,435,846 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2196,425,656 - 96,429,874 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660426,977,047 - 6,981,546 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
PAX4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh387127,610,292 - 127,618,142 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl7127,610,292 - 127,618,142 (-)EnsemblGRCh38hg38GRCh38
GRCh377127,250,346 - 127,258,196 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 367127,037,582 - 127,043,016 (-)NCBINCBI36Build 36hg18NCBI36
Build 347126,844,296 - 126,849,731NCBI
Celera7122,054,068 - 122,059,509 (-)NCBICelera
Cytogenetic Map7q32.1NCBI
HuRef7121,611,239 - 121,616,685 (-)NCBIHuRef
CHM1_17127,183,648 - 127,189,085 (-)NCBICHM1_1
T2T-CHM13v2.07128,921,978 - 128,929,835 (-)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v27126,633,785 - 126,639,226 (-)NCBI
Pax4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39628,442,333 - 28,449,339 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl628,442,333 - 28,449,352 (-)EnsemblGRCm39 Ensembl
GRCm38628,442,334 - 28,449,340 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl628,442,334 - 28,449,353 (-)EnsemblGRCm38mm10GRCm38
MGSCv37628,392,334 - 28,399,340 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36628,392,350 - 28,399,285 (-)NCBIMGSCv36mm8
Celera628,449,374 - 28,456,380 (-)NCBICelera
Cytogenetic Map6A3.3NCBI
cM Map611.99NCBI
Pax4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8458,023,873 - 58,032,265 (-)NCBIGRCr8
mRatBN7.2457,058,453 - 57,065,995 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl457,058,462 - 57,063,408 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx462,041,683 - 62,046,628 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0457,957,636 - 57,962,575 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0456,359,732 - 56,364,677 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0455,735,640 - 55,753,461 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl455,735,682 - 55,740,627 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0455,483,073 - 55,501,087 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4455,313,500 - 55,318,995 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1455,563,656 - 55,569,152 (-)NCBI
Celera452,169,993 - 52,174,904 (-)NCBICelera
Cytogenetic Map4q22NCBI
Pax4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554798,660,089 - 8,664,463 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554798,660,089 - 8,664,463 (-)NCBIChiLan1.0ChiLan1.0
PAX4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v26164,469,513 - 164,483,506 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1716,479,764 - 16,492,993 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v07119,605,924 - 119,613,579 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.17132,260,859 - 132,266,384 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl7132,260,859 - 132,268,516 (-)Ensemblpanpan1.1panPan2
PAX4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1148,714,251 - 8,719,387 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl148,714,949 - 8,719,371 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha148,405,492 - 8,412,207 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0148,486,208 - 8,492,923 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl148,486,089 - 8,492,911 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1148,690,433 - 8,697,148 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0148,424,792 - 8,431,504 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0148,578,658 - 8,585,374 (+)NCBIUU_Cfam_GSD_1.0
Pax4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440511853,683,725 - 53,724,528 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647914,807,538 - 14,812,575 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647914,807,503 - 14,812,575 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PAX4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1820,673,114 - 20,680,287 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11820,675,874 - 20,680,315 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21821,676,916 - 21,683,984 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Pax4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247838,340,098 - 8,344,371 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247838,340,098 - 8,344,371 (+)NCBIHetGla_female_1.0HetGla 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

hemolymphoid system
High
Medium
Low 14
Below cutoff 3

Sequence


RefSeq Acc Id: ENSCSAT00000008279   ⟹   ENSCSAP00000006428
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl2196,425,656 - 96,429,874 (-)Ensembl
RefSeq Acc Id: XM_007982819   ⟹   XP_007981010
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12196,425,496 - 96,435,846 (-)NCBI
Vero_WHO_p1.0NW_0236660426,977,047 - 6,981,322 (+)NCBI
Sequence:
RefSeq Acc Id: XM_038004413   ⟹   XP_037860341
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_0236660426,977,069 - 6,981,546 (+)NCBI
Protein Sequences
Protein RefSeqs XP_007981010 (Get FASTA)   NCBI Sequence Viewer  
  XP_037860341 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000006428
  ENSCSAP00000006428.1
RefSeq Acc Id: XP_007981010   ⟸   XM_007982819
- Peptide Label: isoform X1
- UniProtKB: A0A0D9RCT9 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCSAP00000006428   ⟸   ENSCSAT00000008279
RefSeq Acc Id: XP_037860341   ⟸   XM_038004413
- Peptide Label: isoform X2


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000010195 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000008279.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.10.10 UniProtKB/TrEMBL
  Homeodomain-like UniProtKB/TrEMBL
InterPro Homeobox-like_sf UniProtKB/TrEMBL
  Homeobox_CS UniProtKB/TrEMBL
  Homeobox_dom UniProtKB/TrEMBL
  PAIRED_DNA_bd_dom UniProtKB/TrEMBL
  Paired_dom UniProtKB/TrEMBL
  PAX_fam UniProtKB/TrEMBL
  WH-like_DNA-bd_sf UniProtKB/TrEMBL
KEGG Report csab:103226846 UniProtKB/TrEMBL
NCBI Gene PAX4 ENTREZGENE
PANTHER PTHR45636 UniProtKB/TrEMBL
  PTHR45636:SF8 UniProtKB/TrEMBL
Pfam Homeodomain UniProtKB/TrEMBL
  PAX UniProtKB/TrEMBL
PRINTS PAIREDBOX UniProtKB/TrEMBL
PROSITE HOMEOBOX_1 UniProtKB/TrEMBL
  HOMEOBOX_2 UniProtKB/TrEMBL
  PAIRED_1 UniProtKB/TrEMBL
  PAIRED_2 UniProtKB/TrEMBL
SMART HOX UniProtKB/TrEMBL
  PAX UniProtKB/TrEMBL
Superfamily-SCOP SSF46689 UniProtKB/TrEMBL
UniProt A0A0D9RCT9 ENTREZGENE, UniProtKB/TrEMBL