Hoxa5 (homeo box A5) - Rat Genome Database
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Gene: Hoxa5 (homeo box A5) Rattus norvegicus
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Symbol: Hoxa5
Name: homeo box A5
RGD ID: 620609
Description: ENCODES a protein that exhibits DNA binding (ortholog); DNA-binding transcription activator activity, RNA polymerase II-specific (ortholog); DNA-binding transcription factor activity (ortholog); INVOLVED IN anterior/posterior pattern specification (ortholog); bronchiole development (ortholog); cartilage morphogenesis (ortholog); ASSOCIATED WITH Diaphragmatic Hernia (ortholog); head and neck squamous cell carcinoma (ortholog); Mouth Neoplasms (ortholog); FOUND IN nucleus (ortholog); INTERACTS WITH all-trans-retinoic acid; ammonium chloride; diethylstilbestrol
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: homeobox protein Hox-1.3; homeobox protein Hox-A5; homeobox protein Hox-A5-like; hox-1.3; LOC100909641; LOC100911546
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2481,302,341 - 81,306,234 (-)NCBI
Rnor_5.04146,837,214 - 146,841,619 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4480,501,675 - 80,504,626 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1480,779,823 - 80,781,740 (-)NCBI
Celera476,192,532 - 76,196,931 (-)NCBICelera
Cytogenetic Map4q24NCBI


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
anterior/posterior pattern specification  (IBA,ISO)
bronchiole development  (ISO)
cartilage morphogenesis  (ISO)
cell migration  (ISO)
cell-cell signaling involved in mammary gland development  (ISO)
embryonic skeletal system development  (ISO)
embryonic skeletal system morphogenesis  (ISO)
epithelial tube branching involved in lung morphogenesis  (ISO)
intestinal epithelial cell maturation  (ISO)
lobar bronchus epithelium development  (ISO)
lung alveolus development  (ISO)
lung development  (ISO)
lung goblet cell differentiation  (ISO)
lung-associated mesenchyme development  (ISO)
mammary gland alveolus development  (ISO)
mammary gland epithelial cell differentiation  (ISO)
mesenchymal-epithelial cell signaling  (ISO)
morphogenesis of an epithelium  (ISO)
multicellular organism growth  (ISO)
negative regulation of angiogenesis  (ISO)
negative regulation of erythrocyte differentiation  (ISO)
pattern specification process  (ISO,TAS)
positive regulation of apoptotic process  (ISO)
positive regulation of gene expression  (ISO)
positive regulation of myeloid cell differentiation  (ISO)
positive regulation of transcription by RNA polymerase II  (ISO)
regulation of mammary gland epithelial cell proliferation  (ISO)
regulation of transcription by RNA polymerase II  (IBA)
respiratory gaseous exchange by respiratory system  (ISO)
respiratory system process  (ISO)
skeletal system development  (ISO)
thyroid gland development  (ISO)
trachea cartilage morphogenesis  (ISO)
trachea morphogenesis  (ISO)

Cellular Component
cellular_component  (ND)
nucleus  (IBA,ISO)

References

Additional References at PubMed
PMID:2890554   PMID:7901120   PMID:7911971   PMID:8635464   PMID:8657138   PMID:9441679   PMID:9603431   PMID:10397719   PMID:10564089   PMID:10875927   PMID:10879542   PMID:11900462  
PMID:12815622   PMID:15295088   PMID:15545268   PMID:16607641   PMID:16756717   PMID:17003488   PMID:17417799   PMID:17626057   PMID:17957028   PMID:23136161   PMID:29070584  


Genomics

Comparative Map Data
Hoxa5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2481,302,341 - 81,306,234 (-)NCBI
Rnor_5.04146,837,214 - 146,841,619 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4480,501,675 - 80,504,626 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1480,779,823 - 80,781,740 (-)NCBI
Celera476,192,532 - 76,196,931 (-)NCBICelera
Cytogenetic Map4q24NCBI
HOXA5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl727,141,052 - 27,143,681 (-)EnsemblGRCh38hg38GRCh38
GRCh38727,141,052 - 27,143,681 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37727,180,671 - 27,192,309 (-)NCBIGRCh37GRCh37hg19GRCh37
GRCh37727,180,671 - 27,183,300 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36727,147,521 - 27,149,812 (-)NCBINCBI36hg18NCBI36
Build 34726,954,235 - 26,956,527NCBI
Celera727,169,928 - 27,172,220 (-)NCBI
Cytogenetic Map7p15.2NCBI
HuRef727,061,238 - 27,063,851 (-)NCBIHuRef
CHM1_1727,180,379 - 27,182,993 (-)NCBICHM1_1
CRA_TCAGchr7v2727,231,823 - 27,234,436 (-)NCBI
Hoxa5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39652,178,734 - 52,181,567 (-)NCBIGRCm39mm39
GRCm38652,201,754 - 52,204,587 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl652,201,754 - 52,204,587 (-)EnsemblGRCm38mm10GRCm38
MGSCv37652,151,753 - 52,154,586 (-)NCBIGRCm37mm9NCBIm37
MGSCv36652,131,337 - 52,134,170 (-)NCBImm8
Celera652,723,406 - 52,726,239 (-)NCBICelera
Cytogenetic Map6B3NCBI
cM Map625.4NCBI
Hoxa5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541028,834,127 - 28,838,244 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541028,835,795 - 28,838,244 (-)NCBIChiLan1.0ChiLan1.0
HOXA5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1727,385,175 - 27,388,990 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl727,385,175 - 27,388,990 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0727,786,040 - 27,789,339 (-)NCBIMhudiblu_PPA_v0panPan3
HOXA5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl1440,315,639 - 40,317,768 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.11440,315,409 - 40,319,001 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Hoxa5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049364783,768,757 - 3,771,850 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HOXA5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1845,421,663 - 45,432,885 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11845,429,691 - 45,432,723 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21850,062,880 - 50,065,910 (+)NCBISscrofa10.2Sscrofa10.2susScr3
HOXA5
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12131,224,017 - 31,227,819 (+)NCBI
ChlSab1.1 Ensembl2131,224,977 - 31,227,994 (+)Ensembl
Hoxa5
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247393,461,779 - 3,464,543 (+)NCBI

Position Markers
Hoxa5  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0482,171,223 - 82,171,373NCBIRnor6.0
Rnor_6.0482,257,017 - 82,257,167NCBIRnor6.0
Rnor_5.04146,923,848 - 146,923,998UniSTSRnor5.0
Rnor_5.04146,838,054 - 146,838,204UniSTSRnor5.0
RGSC_v3.4480,502,545 - 80,502,695UniSTSRGSC3.4
Celera476,193,372 - 76,193,522UniSTS
Cytogenetic Map4q24UniSTS
stSG609349  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0482,170,575 - 82,170,793NCBIRnor6.0
Rnor_6.0482,256,369 - 82,256,587NCBIRnor6.0
Rnor_5.04146,923,200 - 146,923,418UniSTSRnor5.0
Rnor_5.04146,837,406 - 146,837,624UniSTSRnor5.0
RGSC_v3.4480,501,897 - 80,502,115UniSTSRGSC3.4
Celera476,192,724 - 76,192,942UniSTS
Cytogenetic Map4q24UniSTS
MARC_6217-6218:992007117:1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0482,170,609 - 82,170,843NCBIRnor6.0
Rnor_6.0482,256,403 - 82,256,637NCBIRnor6.0
Rnor_5.04146,923,234 - 146,923,468UniSTSRnor5.0
Rnor_5.04146,837,440 - 146,837,674UniSTSRnor5.0
RGSC_v3.4480,501,931 - 80,502,165UniSTSRGSC3.4
Celera476,192,758 - 76,192,992UniSTS
Cytogenetic Map4q24UniSTS
UniSTS:57649  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0482,170,755 - 82,171,099NCBIRnor6.0
Rnor_6.0482,256,549 - 82,256,893NCBIRnor6.0
Rnor_5.04146,923,380 - 146,923,724UniSTSRnor5.0
Rnor_5.04146,837,586 - 146,837,930UniSTSRnor5.0
RGSC_v3.4480,502,077 - 80,502,421UniSTSRGSC3.4
Celera476,192,904 - 76,193,248UniSTS
Cytogenetic Map4q24UniSTS
REN100511  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0482,170,497 - 82,170,771NCBIRnor6.0
Rnor_6.0482,256,291 - 82,256,565NCBIRnor6.0
Rnor_5.04146,923,122 - 146,923,396UniSTSRnor5.0
Rnor_5.04146,837,328 - 146,837,602UniSTSRnor5.0
RGSC_v3.4480,501,819 - 80,502,093UniSTSRGSC3.4
Celera476,192,646 - 76,192,920UniSTS
Cytogenetic Map4q24UniSTS
REN100512  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0482,170,757 - 82,171,014NCBIRnor6.0
Rnor_6.0482,256,551 - 82,256,808NCBIRnor6.0
Rnor_5.04146,923,382 - 146,923,639UniSTSRnor5.0
Rnor_5.04146,837,588 - 146,837,845UniSTSRnor5.0
RGSC_v3.4480,502,079 - 80,502,336UniSTSRGSC3.4
Celera476,192,906 - 76,193,163UniSTS
Cytogenetic Map4q24UniSTS
REN100522  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0482,172,878 - 82,173,124NCBIRnor6.0
Rnor_6.0482,258,673 - 82,258,919NCBIRnor6.0
Rnor_5.04146,925,504 - 146,925,750UniSTSRnor5.0
Rnor_5.04146,839,709 - 146,839,955UniSTSRnor5.0
RGSC_v3.4480,504,201 - 80,504,447UniSTSRGSC3.4
Celera476,195,021 - 76,195,267UniSTS
Cytogenetic Map4q24UniSTS
Hoxa5  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0482,170,480 - 82,170,627NCBIRnor6.0
Rnor_6.0482,256,274 - 82,256,421NCBIRnor6.0
Rnor_5.04146,923,105 - 146,923,252UniSTSRnor5.0
Rnor_5.04146,837,311 - 146,837,458UniSTSRnor5.0
RGSC_v3.4480,501,802 - 80,501,949UniSTSRGSC3.4
Celera476,192,629 - 76,192,776UniSTS
Cytogenetic Map4q24UniSTS
Hoxa5  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0482,170,485 - 82,170,666NCBIRnor6.0
Rnor_6.0482,256,279 - 82,256,460NCBIRnor6.0
Rnor_5.04146,923,110 - 146,923,291UniSTSRnor5.0
Rnor_5.04146,837,316 - 146,837,497UniSTSRnor5.0
RGSC_v3.4480,501,807 - 80,501,988UniSTSRGSC3.4
Celera476,192,634 - 76,192,815UniSTS
Cytogenetic Map4q24UniSTS
Hoxa5  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0482,172,806 - 82,172,890NCBIRnor6.0
Rnor_6.0482,258,601 - 82,258,685NCBIRnor6.0
Rnor_5.04146,839,637 - 146,839,721UniSTSRnor5.0
Rnor_5.04146,925,432 - 146,925,516UniSTSRnor5.0
Celera476,194,949 - 76,195,033UniSTS
Cytogenetic Map4q24UniSTS

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:31
Count of miRNA genes:31
Interacting mature miRNAs:31
Transcripts:ENSRNOT00000008523
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


Sequence


Reference Sequences
RefSeq Acc Id: NM_024389   ⟹   NP_077365
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2481,302,341 - 81,306,234 (-)NCBI
RefSeq Acc Id: XM_001059031
RefSeq Status:
Type: CODING
Position: No map positions available.
RefSeq Acc Id: XM_001064984
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
RGSC_v3.4480,501,675 - 80,504,626 (-)RGD
RefSeq Acc Id: XM_003753897   ⟹   XP_003753945
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera476,192,532 - 76,196,931 (-)NCBI
Protein Sequences
Protein RefSeqs NP_077365 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA67844 (Get FASTA)   NCBI Sequence Viewer  
  P52949 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_003753945   ⟸   XM_003753897
RefSeq Acc Id: NP_077365   ⟸   NM_024389


Additional Information

Database Acc Id Source(s)
InterPro Homeobox-like_sf UniProtKB/Swiss-Prot
  Homeobox_antennapedia UniProtKB/Swiss-Prot
  Homeobox_Antennapedia_CS UniProtKB/Swiss-Prot
  Homeobox_CS UniProtKB/Swiss-Prot
  Homeobox_dom UniProtKB/Swiss-Prot
  Homeobox_metazoa UniProtKB/Swiss-Prot
NCBI Gene 79241 ENTREZGENE
Pfam Homeodomain UniProtKB/Swiss-Prot
PhenoGen Hoxa5 PhenoGen
PRINTS ANTENNAPEDIA UniProtKB/Swiss-Prot
  HOMEOBOX UniProtKB/Swiss-Prot
PROSITE ANTENNAPEDIA UniProtKB/Swiss-Prot
  HOMEOBOX_1 UniProtKB/Swiss-Prot
  HOMEOBOX_2 UniProtKB/Swiss-Prot
SMART HOX UniProtKB/Swiss-Prot
Superfamily-SCOP SSF46689 UniProtKB/Swiss-Prot
UniProt HXA5_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-07-29 Hoxa5  homeo box A5  LOC100911546  homeobox protein Hox-A5-like  Data Merged 737654 PROVISIONAL
2015-07-29 Hoxa5  homeo box A5  LOC100909641  homeobox protein Hox-A5-like  Data Merged 737654 PROVISIONAL
2012-07-05 LOC100911546  homeobox protein Hox-A5-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2012-07-05 LOC100909641  homeobox protein Hox-A5-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2004-09-10 Hoxa5  homeo box A5      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Hoxa5  homeo box A5      Symbol and Name status set to provisional 70820 PROVISIONAL