PBX1 (PBX homeobox 1) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: PBX1 (PBX homeobox 1) Chlorocebus sabaeus
Analyze
Symbol: PBX1
Name: PBX homeobox 1
RGD ID: 18647569
Description: ENCODES a protein that exhibits RNA polymerase II transcription regulatory region sequence-specific DNA binding (ortholog); INVOLVED IN adrenal gland development (ortholog); animal organ morphogenesis (ortholog); anterior/posterior pattern specification (ortholog); ASSOCIATED WITH autism spectrum disorder (ortholog); brain infarction (ortholog); Burkitt lymphoma (ortholog); FOUND IN cytoplasm (inferred); nucleoplasm (inferred); nucleus (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: pre-B-cell leukemia transcription factor 1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12563,990,553 - 64,317,901 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2563,989,612 - 64,084,673 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605565,810,334 - 66,103,813 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
PBX1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12563,990,553 - 64,317,901 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2563,989,612 - 64,084,673 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605565,810,334 - 66,103,813 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
PBX1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381164,559,184 - 164,886,047 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1164,555,584 - 164,899,296 (+)EnsemblGRCh38hg38GRCh38
GRCh371164,528,421 - 164,855,284 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361162,795,561 - 163,082,934 (+)NCBINCBI36Build 36hg18NCBI36
Build 341161,260,594 - 161,547,967NCBI
Celera1137,634,090 - 137,926,324 (+)NCBICelera
Cytogenetic Map1q23.3NCBI
HuRef1135,774,690 - 136,068,016 (+)NCBIHuRef
CHM1_11165,951,428 - 166,243,870 (+)NCBICHM1_1
T2T-CHM13v2.01163,905,317 - 164,232,389 (+)NCBIT2T-CHM13v2.0
Pbx1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391167,946,933 - 168,259,898 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1167,946,933 - 168,259,839 (-)EnsemblGRCm39 Ensembl
GRCm381168,119,364 - 168,432,365 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1168,119,364 - 168,432,270 (-)EnsemblGRCm38mm10GRCm38
MGSCv371170,049,495 - 170,362,389 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361169,956,674 - 170,268,631 (-)NCBIMGSCv36mm8
MGSCv361169,328,392 - 169,641,347 (-)NCBIMGSCv36mm8
Celera1170,542,293 - 170,864,365 (-)NCBICelera
Cytogenetic Map1H2.3NCBI
cM Map175.95NCBI
Pbx1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81382,811,664 - 83,121,447 (-)NCBIGRCr8
mRatBN7.21380,278,766 - 80,588,563 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1380,278,770 - 80,588,594 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1382,940,830 - 83,217,210 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01384,248,904 - 84,525,004 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01381,480,869 - 81,756,919 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01386,390,741 - 86,671,460 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1386,390,741 - 86,451,002 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01391,028,026 - 91,307,274 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41383,839,256 - 84,115,516 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11383,853,894 - 84,129,704 (-)NCBI
Celera1380,014,082 - 80,284,838 (-)NCBICelera
Cytogenetic Map13q24NCBI
Pbx1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495546211,812,649 - 12,082,316 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495546211,777,168 - 12,083,068 (-)NCBIChiLan1.0ChiLan1.0
PBX1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2184,886,020 - 85,212,543 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1184,554,490 - 84,880,947 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01139,985,392 - 140,311,845 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11143,778,426 - 144,104,493 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1143,778,701 - 144,104,797 (+)Ensemblpanpan1.1panPan2
PBX1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13818,378,997 - 18,703,694 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3818,418,093 - 18,703,497 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3818,435,288 - 18,759,350 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03818,460,019 - 18,784,434 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3818,458,914 - 18,783,979 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13818,431,748 - 18,755,044 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03818,781,894 - 19,105,974 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03819,078,211 - 19,402,654 (-)NCBIUU_Cfam_GSD_1.0
Pbx1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344102,354,727 - 102,593,874 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493648120,203,405 - 20,440,629 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493648120,200,236 - 20,440,623 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PBX1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl485,824,666 - 86,170,191 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1485,824,590 - 86,170,328 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2493,531,066 - 93,876,673 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Pbx1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248262,945,004 - 3,215,110 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248262,944,272 - 3,250,957 (+)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

endocrine system hemolymphoid system nervous system
High
Medium 36 42
Low 14 18
Below cutoff 5

Sequence


Reference Sequences
RefSeq Acc Id: ENSCSAT00000008767   ⟹   ENSCSAP00000006900
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl2563,989,612 - 64,084,673 (-)Ensembl
RefSeq Acc Id: XM_007989707   ⟹   XP_007987898
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12564,024,342 - 64,317,898 (-)NCBI
Vero_WHO_p1.0NW_02366605565,810,334 - 66,103,813 (-)NCBI
Sequence:
RefSeq Acc Id: XM_007989711   ⟹   XP_007987902
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12564,029,202 - 64,317,900 (-)NCBI
Vero_WHO_p1.0NW_02366605565,810,334 - 66,103,813 (-)NCBI
Sequence:
RefSeq Acc Id: XM_007989715   ⟹   XP_007987906
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12564,024,342 - 64,317,894 (-)NCBI
Vero_WHO_p1.0NW_02366605565,810,334 - 66,103,809 (-)NCBI
Sequence:
RefSeq Acc Id: XM_037986017   ⟹   XP_037841945
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366605565,810,334 - 66,103,810 (-)NCBI
Protein Sequences
Protein RefSeqs XP_007987898 (Get FASTA)   NCBI Sequence Viewer  
  XP_007987902 (Get FASTA)   NCBI Sequence Viewer  
  XP_007987906 (Get FASTA)   NCBI Sequence Viewer  
  XP_037841945 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000006900.1
Reference Protein Sequences
RefSeq Acc Id: XP_007987898   ⟸   XM_007989707
- Peptide Label: isoform X1
RefSeq Acc Id: XP_007987906   ⟸   XM_007989715
- Peptide Label: isoform X4
RefSeq Acc Id: XP_007987902   ⟸   XM_007989711
- Peptide Label: isoform X3
RefSeq Acc Id: ENSCSAP00000006900   ⟸   ENSCSAT00000008767
RefSeq Acc Id: XP_037841945   ⟸   XM_037986017
- Peptide Label: isoform X2


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000010678 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000008767.1 UniProtKB/TrEMBL
Gene3D-CATH Homeodomain-like UniProtKB/TrEMBL
InterPro Homeobox-like_sf UniProtKB/TrEMBL
  Homeobox_CS UniProtKB/TrEMBL
  Homeobox_dom UniProtKB/TrEMBL
  Homeobox_KN_domain UniProtKB/TrEMBL
  PBX UniProtKB/TrEMBL
NCBI Gene PBX1 ENTREZGENE
PANTHER HOMEOBOX PROTEIN TRANSCRIPTION FACTORS UniProtKB/TrEMBL
  PRE-B-CELL LEUKEMIA TRANSCRIPTION FACTOR 1 UniProtKB/TrEMBL
Pfam Homeobox_KN UniProtKB/TrEMBL
  PBC UniProtKB/TrEMBL
PROSITE HOMEOBOX_1 UniProtKB/TrEMBL
  HOMEOBOX_2 UniProtKB/TrEMBL
  PBC UniProtKB/TrEMBL
SMART HOX UniProtKB/TrEMBL
Superfamily-SCOP SSF46689 UniProtKB/TrEMBL
UniProt A0A0D9RE61_CHLSB UniProtKB/TrEMBL