Hoxa5 (homeo box A5) - Rat Genome Database

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Gene: Hoxa5 (homeo box A5) Rattus norvegicus
Analyze
Symbol: Hoxa5 (Ensembl: LOC103692127)
Name: homeo box A5 (Ensembl:homeobox protein Hox-A5)
RGD ID: 620609
Description: Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in several processes, including negative regulation of angiogenesis; regulation of gene expression; and regulation of myeloid cell differentiation. Predicted to act upstream of or within several processes, including intestinal epithelial cell maturation; mammary gland development; and respiratory system development. Predicted to be active in nucleus. Orthologous to human HOXA5 (homeobox A5); INTERACTS WITH all-trans-retinoic acid; ammonium chloride; diethylstilbestrol.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: homeobox protein Hox-1.3; homeobox protein Hox-A5; homeobox protein Hox-A5-like; hox-1.3; LOC100909641; LOC100911546; LOC103689922
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8482,632,958 - 82,636,851 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl482,632,306 - 82,639,038 (-)EnsemblGRCr8
mRatBN7.2481,302,341 - 81,306,234 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl481,302,353 - 81,306,234 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx486,524,140 - 86,528,033 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0482,299,530 - 82,303,423 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0480,726,673 - 80,730,567 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0482,170,383 - 82,174,788 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl482,170,387 - 82,173,207 (-)NCBIrn6Rnor6.0
Rnor_5.04146,837,214 - 146,841,619 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4480,501,675 - 80,504,626 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera476,192,532 - 76,196,931 (-)NCBICelera
RGSC_v3.1480,779,823 - 80,781,740 (-)NCBI
Cytogenetic Map4q24NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2-butoxyethanol  (ISO)
2-hydroxypropanoic acid  (ISO)
4,4'-sulfonyldiphenol  (ISO)
5-aza-2'-deoxycytidine  (ISO)
all-trans-retinoic acid  (EXP,ISO)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
arotinoid acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
benzo[a]pyrene  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (ISO)
bisphenol F  (ISO)
cadmium dichloride  (ISO)
calcitriol  (ISO)
CHIR 99021  (ISO)
chlorpyrifos  (ISO)
cisplatin  (ISO)
clobetasol  (ISO)
copper(II) chloride  (ISO)
cortisol  (ISO)
cyclosporin A  (ISO)
cytarabine  (ISO)
diarsenic trioxide  (ISO)
diethylstilbestrol  (EXP)
diuron  (EXP)
etoposide  (ISO)
flavonoids  (EXP)
folic acid  (ISO)
genistein  (ISO)
gentamycin  (EXP)
geraniol  (ISO)
lipopolysaccharide  (EXP)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (ISO)
mitoxantrone  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
N1'-[2-[[5-[(dimethylamino)methyl]-2-furanyl]methylthio]ethyl]-N1-methyl-2-nitroethene-1,1-diamine  (EXP)
nickel atom  (ISO)
nitrofen  (ISO)
nitrogen dioxide  (ISO)
oxaliplatin  (EXP)
ozone  (ISO)
paracetamol  (EXP,ISO)
perfluorodecanoic acid  (ISO)
perfluorononanoic acid  (ISO)
perfluorooctanoic acid  (ISO)
phosgene  (ISO)
pirinixic acid  (ISO)
quercetin  (ISO)
rac-lactic acid  (ISO)
ranitidine  (EXP)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
stigmasterol  (ISO)
temozolomide  (ISO)
testosterone  (ISO)
thiram  (ISO)
titanium dioxide  (ISO)
topotecan  (EXP)
trichloroethene  (EXP)
trichostatin A  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
anterior/posterior pattern specification  (IBA,IEA,ISO)
bronchiole development  (ISO)
cartilage morphogenesis  (ISO)
cell migration  (ISO)
cell-cell signaling  (ISO)
DNA-templated transcription  (IEA)
embryonic skeletal system development  (IEA,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 DNA-templated transcription  (IEA)
regulation of mammary gland epithelial cell proliferation  (ISO)
regulation of transcription by RNA polymerase II  (IBA,IEA)
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
nucleus  (IBA,IEA,ISO)

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Cloning and sequence analysis of homeobox transcription factor cDNAs with an inosine-containing probe. Gorski DH, etal., Biotechniques 1994 May;16(5):856-8, 860-2, 865.
4. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
5. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
6. GOA pipeline RGD automated data pipeline
7. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
8. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
9. Comprehensive gene review and curation RGD comprehensive gene curation
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   PMID:33369800  


Genomics

Comparative Map Data
Hoxa5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8482,632,958 - 82,636,851 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl482,632,306 - 82,639,038 (-)EnsemblGRCr8
mRatBN7.2481,302,341 - 81,306,234 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl481,302,353 - 81,306,234 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx486,524,140 - 86,528,033 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0482,299,530 - 82,303,423 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0480,726,673 - 80,730,567 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0482,170,383 - 82,174,788 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl482,170,387 - 82,173,207 (-)NCBIrn6Rnor6.0
Rnor_5.04146,837,214 - 146,841,619 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4480,501,675 - 80,504,626 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera476,192,532 - 76,196,931 (-)NCBICelera
RGSC_v3.1480,779,823 - 80,781,740 (-)NCBI
Cytogenetic Map4q24NCBI
HOXA5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38727,141,052 - 27,143,681 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl727,141,052 - 27,143,681 (-)Ensemblhg38GRCh38
GRCh37727,180,671 - 27,183,300 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36727,147,521 - 27,149,812 (-)NCBIBuild 36Build 36hg18NCBI36
Build 34726,954,235 - 26,956,527NCBI
Celera727,169,928 - 27,172,220 (-)NCBICelera
Cytogenetic Map7p15.2NCBI
HuRef727,061,238 - 27,063,851 (-)NCBIHuRef
CHM1_1727,180,379 - 27,182,993 (-)NCBICHM1_1
T2T-CHM13v2.0727,277,027 - 27,279,657 (-)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v2727,231,823 - 27,234,436 (-)NCBI
Hoxa5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39652,178,768 - 52,181,437 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl652,178,734 - 52,181,567 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38652,201,754 - 52,204,587 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl652,201,754 - 52,204,587 (-)Ensemblmm10GRCm38
MGSCv37652,151,753 - 52,154,586 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36652,131,337 - 52,134,170 (-)NCBIMGSCv36mm8
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 (-)Ensembl
ChiLan1.0NW_00495541028,835,795 - 28,838,244 (-)NCBIChiLan1.0ChiLan1.0
HOXA5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2631,969,814 - 31,973,097 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1780,294,841 - 80,297,564 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0727,786,040 - 27,789,339 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1727,385,175 - 27,388,990 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl727,385,175 - 27,388,990 (-)EnsemblpanPan2panpan1.1
HOXA5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11440,315,409 - 40,319,001 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1440,315,639 - 40,317,768 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1439,746,469 - 39,750,543 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01440,253,687 - 40,258,302 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1440,254,476 - 40,256,603 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11440,368,242 - 40,372,352 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01440,053,309 - 40,057,416 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01440,411,943 - 40,416,018 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Hoxa5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440511884,557,026 - 84,560,322 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364783,769,258 - 3,771,840 (-)EnsemblSpeTri2.0 Ensembl
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 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11845,429,691 - 45,432,723 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21850,062,880 - 50,065,910 (+)NCBISscrofa10.2Sscrofa10.2susScr3
HOXA5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12131,224,017 - 31,227,819 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2131,224,977 - 31,227,994 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604273,506,435 - 73,509,813 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Hoxa5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247393,461,800 - 3,464,785 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247393,461,779 - 3,464,543 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Hoxa5
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1688,856,458 - 88,860,848 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Hoxa5
17 total Variants
miRNA Target Status (No longer updated)

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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1358352Srcrt3Stress Responsive Cort QTL 32.29blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)439431983123203361Rat
1549843Bw53Body weight QTL 530.0001body mass (VT:0001259)body weight gain (CMO:0000420)459753119104753119Rat
61445Strs3Sensitivity to stroke QTL 33cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)44140057786400577Rat
6893678Bw108Body weight QTL 1082.60.006body mass (VT:0001259)body weight (CMO:0000012)44442502489425024Rat
10755501Bp390Blood pressure QTL 3902.5arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)427730518170099664Rat
1357342Bw40Body weight QTL 400.001body mass (VT:0001259)body weight (CMO:0000012)474233320119233320Rat
631556Bp135Blood pressure QTL 1350.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)480212111119233320Rat
1358363Sradr3Stress Responsive Adrenal Weight QTL 36.19adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)458817672103817672Rat
61330Eau1Experimental allergic uveoretinitis QTL 10.0003uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)426234499134199155Rat
70167Bw22Body weight QTL 223.1body mass (VT:0001259)body weight (CMO:0000012)474233320119233320Rat
1549839Bw52Body weight QTL 520.0001body mass (VT:0001259)body weight gain (CMO:0000420)471647492116647492Rat
6909128Pancm4Pancreatic morphology QTL 411.35pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)427862204126119996Rat
8694439Bw168Body weight QTL 1689.570.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)44140060386400603Rat
61476Aia3Adjuvant induced arthritis QTL 33.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)475939858140508796Rat
1641919Alc22Alcohol consumption QTL 220.0005drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)465060960127749483Rat
1354660Salc1Saline consumption QTL 111.26drinking behavior trait (VT:0001422)saline drink intake rate (CMO:0001627)445429897149763204Rat
1298082Stresp4Stress response QTL 4blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)451085655113588029Rat
2317586Eae25Experimental allergic encephalomyelitis QTL 259.300000190734863nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis duration (CMO:0001424)48021363484338055Rat
61364Iddm2Insulin dependent diabetes mellitus QTL 2blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)480216705104243248Rat
2317588Eae27Experimental allergic encephalomyelitis QTL 27nervous system integrity trait (VT:0010566)percentage of study population developing experimental autoimmune encephalomyelitis during a period of time (CMO:0001047)469036742114036742Rat
1300139Hrtrt6Heart rate QTL 62.85heart pumping trait (VT:2000009)heart rate (CMO:0000002)440490442117737312Rat
70200Alc18Alcohol consumption QTL 189.2drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)457613339151163960Rat
4889969Bss96Bone structure and strength QTL 964.9tibia size trait (VT:0100001)tibia cortical bone volume (CMO:0001725)457613242102613242Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)412212457182430611Rat
4889972Bss97Bone structure and strength QTL 975.6tibia size trait (VT:0100001)tibia total bone volume (CMO:0001724)457613242102613242Rat
6478684Anxrr30Anxiety related response QTL 300.00087defecation behavior trait (VT:0010462)defecation rate (CMO:0000998)464084079109084079Rat
5685009Bmd86Bone mineral density QTL 863.7tibia mineral mass (VT:1000283)bone mineral density (CMO:0001226)457613242102613242Rat
2306547Iddm38Insulin dependent diabetes mellitus QTL 38blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)468353567113353567Rat
738009Sach4Saccharine consumption QTL 44.90.000016consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)460916264184426481Rat
2306545Iddm39Insulin dependent diabetes mellitus QTL 39blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)478687630123687630Rat
631261Tcas3Tongue tumor susceptibility QTL 36.88tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)41170660492690519Rat
6478772Anxrr49Anxiety related response QTL 490.15488defecation behavior trait (VT:0010462)defecation rate (CMO:0000998)464084079109084079Rat
631646Stl4Serum triglyceride level QTL 46.50.0001blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)474169813134199155Rat
2312569Pur19Proteinuria QTL 193.40.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)459836842104836842Rat
61406Scwia1Streptococcal cell wall induced arthritis QTL 12.3joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)475939858140508796Rat
1354612Foco1Food consumption QTL 18.87eating behavior trait (VT:0001431)food intake rate (CMO:0000427)445429897149763204Rat
634344Hcar7Hepatocarcinoma resistance QTL 77.8liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)46104105794638356Rat
2303168Bp330Blood pressure QTL 3304.250.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)45889999148002343Rat
738031Alc14Alcohol consumption QTL 147.60.00003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)460916264174095838Rat
1576305Emca6Estrogen-induced mammary cancer QTL 65.8mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)445429709157555683Rat
631651Bp124Blood pressure QTL 1243arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)464209744109209744Rat
61418Pia5Pristane induced arthritis QTL 54.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)463245026129846354Rat
738016Alc16Alcohol consumption QTL 163.60.00015consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)460916264184426481Rat
1558651Swd3Spike wave discharge measurement QTL 34.620.000024brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge frequency (CMO:0001742)44140057786400577Rat
1641833Alc21Alcohol consumption QTL 218.60.0001drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)457664252127749483Rat
2306899Bp338Blood pressure QTL 3380.071arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)482336765127336765Rat
631674Iddm14Insulin dependent diabetes mellitus QTL 14blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)465495851159259805Rat
631546Bp86Blood pressure QTL 863.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)45807987592690793Rat
6478743Anxrr40Anxiety related response QTL 400.83076defecation behavior trait (VT:0010462)defecation rate (CMO:0000998)464084079109084079Rat
61434Cia3Collagen induced arthritis QTL 34.8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)463224393108224393Rat
7394826Bw126Body weight QTL 1260.002body mass (VT:0001259)body weight gain (CMO:0000420)46390045888813920Rat
12798520Anxrr55Anxiety related response QTL 554.450.01locomotor behavior trait (VT:0001392)number of rearing movements with lid-pushing in an experimental apparatus (CMO:0002715)433538597116185060Rat

Markers in Region
Hoxa5  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2481,302,662 - 81,302,813 (+)MAPPERmRatBN7.2
Rnor_6.0482,257,017 - 82,257,167NCBIRnor6.0
Rnor_6.0482,171,223 - 82,171,373NCBIRnor6.0
Rnor_5.04146,838,054 - 146,838,204UniSTSRnor5.0
Rnor_5.04146,923,848 - 146,923,998UniSTSRnor5.0
RGSC_v3.4480,502,545 - 80,502,695UniSTSRGSC3.4
Celera476,193,372 - 76,193,522UniSTS
Cytogenetic Map4q24UniSTS
stSG609349  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2481,302,015 - 81,302,234 (+)MAPPERmRatBN7.2
Rnor_6.0482,256,369 - 82,256,587NCBIRnor6.0
Rnor_6.0482,170,575 - 82,170,793NCBIRnor6.0
Rnor_5.04146,837,406 - 146,837,624UniSTSRnor5.0
Rnor_5.04146,923,200 - 146,923,418UniSTSRnor5.0
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
mRatBN7.2481,302,049 - 81,302,284 (+)MAPPERmRatBN7.2
Rnor_6.0482,256,403 - 82,256,637NCBIRnor6.0
Rnor_6.0482,170,609 - 82,170,843NCBIRnor6.0
Rnor_5.04146,837,440 - 146,837,674UniSTSRnor5.0
Rnor_5.04146,923,234 - 146,923,468UniSTSRnor5.0
RGSC_v3.4480,501,931 - 80,502,165UniSTSRGSC3.4
Celera476,192,758 - 76,192,992UniSTS
Cytogenetic Map4q24UniSTS
UniSTS:57649  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8482,632,812 - 82,633,156 (+)Marker Load Pipeline
mRatBN7.2481,302,195 - 81,302,539 (+)MAPPERmRatBN7.2
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
mRatBN7.2481,301,937 - 81,302,212 (+)MAPPERmRatBN7.2
Rnor_6.0482,256,291 - 82,256,565NCBIRnor6.0
Rnor_6.0482,170,497 - 82,170,771NCBIRnor6.0
Rnor_5.04146,837,328 - 146,837,602UniSTSRnor5.0
Rnor_5.04146,923,122 - 146,923,396UniSTSRnor5.0
RGSC_v3.4480,501,819 - 80,502,093UniSTSRGSC3.4
Celera476,192,646 - 76,192,920UniSTS
Cytogenetic Map4q24UniSTS
REN100512  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8482,632,814 - 82,633,071 (+)Marker Load Pipeline
mRatBN7.2481,302,197 - 81,302,454 (+)MAPPERmRatBN7.2
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
mRatBN7.2481,304,317 - 81,304,564 (+)MAPPERmRatBN7.2
Rnor_6.0482,258,673 - 82,258,919NCBIRnor6.0
Rnor_6.0482,172,878 - 82,173,124NCBIRnor6.0
Rnor_5.04146,839,709 - 146,839,955UniSTSRnor5.0
Rnor_5.04146,925,504 - 146,925,750UniSTSRnor5.0
RGSC_v3.4480,504,201 - 80,504,447UniSTSRGSC3.4
Celera476,195,021 - 76,195,267UniSTS
Cytogenetic Map4q24UniSTS
Hoxa5  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2481,301,920 - 81,302,068 (+)MAPPERmRatBN7.2
Rnor_6.0482,256,274 - 82,256,421NCBIRnor6.0
Rnor_6.0482,170,480 - 82,170,627NCBIRnor6.0
Rnor_5.04146,837,311 - 146,837,458UniSTSRnor5.0
Rnor_5.04146,923,105 - 146,923,252UniSTSRnor5.0
RGSC_v3.4480,501,802 - 80,501,949UniSTSRGSC3.4
Celera476,192,629 - 76,192,776UniSTS
Cytogenetic Map4q24UniSTS
Hoxa5  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2481,301,925 - 81,302,107 (+)MAPPERmRatBN7.2
Rnor_6.0482,256,279 - 82,256,460NCBIRnor6.0
Rnor_6.0482,170,485 - 82,170,666NCBIRnor6.0
Rnor_5.04146,837,316 - 146,837,497UniSTSRnor5.0
Rnor_5.04146,923,110 - 146,923,291UniSTSRnor5.0
RGSC_v3.4480,501,807 - 80,501,988UniSTSRGSC3.4
Celera476,192,634 - 76,192,815UniSTS
Cytogenetic Map4q24UniSTS
Hoxa5  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2481,304,245 - 81,304,330 (+)MAPPERmRatBN7.2
Rnor_6.0482,172,806 - 82,172,890NCBIRnor6.0
Rnor_6.0482,258,601 - 82,258,685NCBIRnor6.0
Rnor_5.04146,925,432 - 146,925,516UniSTSRnor5.0
Rnor_5.04146,839,637 - 146,839,721UniSTSRnor5.0
Celera476,194,949 - 76,195,033UniSTS
Cytogenetic Map4q24UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
hemolymphoid system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
7 1 11 17 25 89 46 11 16 36 32

Sequence


Ensembl Acc Id: ENSRNOT00000074167   ⟹   ENSRNOP00000064639
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl482,632,970 - 82,636,851 (-)Ensembl
mRatBN7.2 Ensembl481,302,353 - 81,306,234 (-)Ensembl
Rnor_6.0 Ensembl482,170,387 - 82,173,207 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000145794   ⟹   ENSRNOP00000099280
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl482,632,306 - 82,637,359 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000171159   ⟹   ENSRNOP00000112212
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl482,632,306 - 82,639,038 (-)Ensembl
RefSeq Acc Id: NM_024389   ⟹   NP_077365
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8482,632,958 - 82,636,851 (-)NCBI
mRatBN7.2481,302,341 - 81,306,234 (-)NCBI
Protein Sequences
Protein RefSeqs NP_077365 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA67844 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000064639
GenBank Protein P52949 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_077365   ⟸   NM_024389
- UniProtKB: M0R5H2 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000064639   ⟸   ENSRNOT00000074167
Ensembl Acc Id: ENSRNOP00000112212   ⟸   ENSRNOT00000171159
Ensembl Acc Id: ENSRNOP00000099280   ⟸   ENSRNOT00000145794
Protein Domains
Homeobox

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-G3V6T2-F1-model_v2 AlphaFold G3V6T2 1-270 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620609 AgrOrtholog
BioCyc Gene G2FUF-44819 BioCyc
Ensembl Genes ENSRNOG00000047951 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000074167 ENTREZGENE
Gene3D-CATH Homeodomain-like UniProtKB/Swiss-Prot
InterPro Antp_homeobox UniProtKB/Swiss-Prot
  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
PANTHER HOMEOBOX PROTEIN HOX UniProtKB/Swiss-Prot
  HOMEOBOX PROTEIN HOX-A5 UniProtKB/Swiss-Prot
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
RatGTEx ENSRNOG00000047951 RatGTEx
SMART HOX UniProtKB/Swiss-Prot
Superfamily-SCOP SSF46689 UniProtKB/Swiss-Prot
UniProt A0ABK0M8Y0_RAT UniProtKB/TrEMBL
  HXA5_RAT UniProtKB/Swiss-Prot
  M0R5H2 ENTREZGENE, UniProtKB/TrEMBL
  P52949 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Hoxa5  homeo box A5  LOC103689922  homeobox protein Hox-A5  Data merged from RGD:9260675 737654 PROVISIONAL
2015-07-29 Hoxa5  homeo box A5  LOC100911546  homeobox protein Hox-A5-like  Data merged from RGD:6492497 737654 PROVISIONAL
2015-07-29 Hoxa5  homeo box A5  LOC100909641  homeobox protein Hox-A5-like  Data merged from RGD:6502805 737654 PROVISIONAL
2014-08-25 LOC103689922  homeobox protein Hox-A5      Symbol and Name status set to provisional 70820 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