Rhoxf13 (Rhox homeobox family member 13) - Rat Genome Database

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Gene: Rhoxf13 (Rhox homeobox family member 13) Rattus norvegicus
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Symbol: Rhoxf13
Name: Rhox homeobox family member 13
RGD ID: 1586264
Description: Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Predicted to be involved in androgen receptor signaling pathway; neuron development; and regulation of gene expression. Predicted to act upstream of or within cellular response to retinoic acid. Predicted to be located in nucleoplasm. Predicted to be active in nucleus. Orthologous to human RHOXF1 (Rhox homeobox family member 1); INTERACTS WITH bisphenol A; 17beta-estradiol (ortholog); 5-aza-2'-deoxycytidine (ortholog).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: homeobox protein Rhox13; LOC691244; rCG53272-like; Reproductive homeobox 13; Rhox13; similar to extraembryonic, spermatogenesis, homeobox 1-like
RGD Orthologs
Human
Mouse
Squirrel
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X121,776,875 - 121,783,406 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 EnsemblX121,776,875 - 121,783,406 (+)EnsemblGRCr8
mRatBN7.2X116,911,226 - 116,917,758 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX116,911,329 - 116,917,644 (+)EnsemblmRatBN7.2
Rnor_6.0X124,267,991 - 124,274,290 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX124,268,129 - 124,274,157 (+)EnsemblRnor_6.0 Ensemblrn6Rnor6.0
Rnor_5.0X124,353,797 - 124,360,019 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4X7,216,949 - 7,222,704 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
CeleraX116,128,924 - 116,135,440 (+)NCBICelera
Cytogenetic MapXq35NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
nucleoplasm  (ISO)
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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Rhoxf13
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X121,776,875 - 121,783,406 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 EnsemblX121,776,875 - 121,783,406 (+)EnsemblGRCr8
mRatBN7.2X116,911,226 - 116,917,758 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX116,911,329 - 116,917,644 (+)EnsemblmRatBN7.2
Rnor_6.0X124,267,991 - 124,274,290 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX124,268,129 - 124,274,157 (+)EnsemblRnor_6.0 Ensemblrn6Rnor6.0
Rnor_5.0X124,353,797 - 124,360,019 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4X7,216,949 - 7,222,704 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
CeleraX116,128,924 - 116,135,440 (+)NCBICelera
Cytogenetic MapXq35NCBI
RHOXF1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X120,109,051 - 120,120,438 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX120,109,050 - 120,245,267 (-)EnsemblGRCh38.p14 Ensemblhg38GRCh38
GRCh37X119,243,009 - 119,249,823 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X119,127,053 - 119,133,875 (-)NCBIBuild 36Build 36hg18NCBI36
CeleraX119,708,916 - 119,715,939 (+)NCBICelera
Cytogenetic MapXq24NCBI
HuRefX108,694,949 - 108,701,800 (-)NCBIHuRef
CHM1_1X119,154,044 - 119,160,880 (-)NCBICHM1_1
T2T-CHM13v2.0X118,484,211 - 118,495,405 (-)NCBIT2T-CHM13v2.0
Rhox13
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X37,210,059 - 37,218,850 (+)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX37,210,052 - 37,218,844 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38X38,120,840 - 38,129,966 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX38,121,219 - 38,129,967 (+)EnsemblGRCm38.p6 Ensemblmm10GRCm38
MGSCv37X35,474,017 - 35,483,143 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36X34,365,917 - 34,374,599 (+)NCBIMGSCv36mm8
CeleraX25,766,316 - 25,775,542 (+)NCBICelera
Cytogenetic MapXA3.3NCBI
cM MapX22.38NCBI
Rhoxf1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mIctTri1.hap1X29,936,095 - 29,942,417 (-)NCBImIctTri1.hap1
HiC_Itri_2X91,019,507 - 91,025,588 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049364799,962,022 - 9,967,930 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0

Variants

.
Variants in Rhoxf13
8 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:37
Count of miRNA genes:36
Interacting mature miRNAs:37
Transcripts:ENSRNOT00000035489
Prediction methods:Miranda, Pita, 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
1598872Memor14Memory QTL 144.5exploratory behavior trait (VT:0010471)difference between duration of physical contact or close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X97528096142528096Rat
1598856Memor1Memory QTL 11.9exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)X120028026141353710Rat
1598809Memor15Memory QTL 154.4exploratory behavior trait (VT:0010471)difference between duration of physical contact or close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X120028026141353710Rat
738025Stresp3Stress response QTL 34.610.0066stress-related behavior trait (VT:0010451)defensive burying - approachX105359969157758123Rat
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X80434318125434318Rat
61431Cia19Collagen induced arthritis QTL 194.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X105468858125434318Rat
10059603Bw174Body weight QTL 1743.40.025body mass (VT:0001259)body weight (CMO:0000012)X118973754157758123Rat
2302047Pia34Pristane induced arthritis QTL 345.80.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)1996916163141916163Rat


Expression

RNA-SEQ Expression

adipose tissue
appendage
circulatory system
endoderm
mesenchyme
mesoderm
reproductive system
respiratory system
1 3 1 1 4 1 51 1

Sequence


Ensembl Acc Id: ENSRNOT00000035489   ⟹   ENSRNOP00000035168
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX121,776,875 - 121,783,406 (+)Ensembl
mRatBN7.2 EnsemblX116,911,329 - 116,917,644 (+)Ensembl
Rnor_6.0 EnsemblX124,268,129 - 124,274,157 (+)Ensembl
RefSeq Acc Id: NM_001408904   ⟹   NP_001395833
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X121,776,875 - 121,783,406 (+)NCBI
mRatBN7.2X116,911,226 - 116,917,758 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001395833 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM10856 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000035168
  ENSRNOP00000035168.6
Ensembl Acc Id: ENSRNOP00000035168   ⟸   ENSRNOT00000035489
RefSeq Acc Id: NP_001395833   ⟸   NM_001408904
- UniProtKB: F1M524 (UniProtKB/TrEMBL)
Protein Domains
Homeobox

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1M524-F1-model_v2 AlphaFold F1M524 1-233 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:1586264 AgrOrtholog
BioCyc Gene G2FUF-1265 BioCyc
Ensembl Genes ENSRNOG00000028050 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000035489 ENTREZGENE
  ENSRNOT00000035489.7 UniProtKB/TrEMBL
Gene3D-CATH Homeodomain-like UniProtKB/TrEMBL
InterPro Homeobox_CS UniProtKB/TrEMBL
  Homeodomain UniProtKB/TrEMBL
  Homeodomain-like UniProtKB/TrEMBL
  Paired_Homeobox_TFs UniProtKB/TrEMBL
KEGG Report rno:691244 UniProtKB/TrEMBL
NCBI Gene 691244 ENTREZGENE
PANTHER HOMEOBOX PROTEIN ARISTALESS UniProtKB/TrEMBL
  HOMEOBOX PROTEIN RHOX13 UniProtKB/TrEMBL
Pfam Homeobox UniProtKB/TrEMBL
PhenoGen Rhoxf13 PhenoGen
PROSITE HOMEOBOX_1 UniProtKB/TrEMBL
  HOMEOBOX_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000028050 RatGTEx
SMART HOX UniProtKB/TrEMBL
Superfamily-SCOP Homeodomain_like UniProtKB/TrEMBL
UniProt F1M524 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2025-07-01 Rhoxf13  Rhox homeobox family member 13  Rhox13  Rhox homeobox family member 13  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2017-07-14 Rhox13  Rhox homeobox family member 13  Rhox13  Reproductive homeobox 13  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-05-24 Rhox13  Reproductive homeobox 13  LOC100364841  rCG53272-like  Data merged from RGD:2320224 1643240 APPROVED
2010-05-05 LOC100364841  rCG53272-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-09-18 Rhox13  Reproductive homeobox 13  LOC691244  similar to extraembryonic, spermatogenesis, homeobox 1-like  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 LOC691244  similar to extraembryonic, spermatogenesis, homeobox 1-like  LOC683136  similar to extraembryonic, spermatogenesis, homeobox 1-like  Data merged from RGD:1590430 1643240 APPROVED
2006-11-20 LOC683136  similar to extraembryonic, spermatogenesis, homeobox 1-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC691244  similar to extraembryonic, spermatogenesis, homeobox 1-like      Symbol and Name status set to provisional 70820 PROVISIONAL