Rhoxf9l1 (Rhox homeobox family member 9 like 1) - Rat Genome Database

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Gene: Rhoxf9l1 (Rhox homeobox family member 9 like 1) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Rhoxf9l1 (Ensembl: Rhox9)
Name: Rhox homeobox family member 9 like 1 (Ensembl:reproductive homeobox 9)
RGD ID: 2321855
Description: Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be active in nucleus.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: homeobox protein PSX3; LOC100364002; Psx3; reproductive homeobox 9 like 1; reproductive homeobox 9-like; rhox homeobox family member 2; rhox homeobox family member 2-like; Rhox9l1
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X121,425,908 - 121,428,443 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 EnsemblX121,425,904 - 121,428,442 (+)EnsemblGRCr8
mRatBN7.2X116,560,244 - 116,562,636 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX116,560,236 - 116,562,774 (+)EnsemblmRatBN7.2
Rnor_6.0X123,999,683 - 124,002,081 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX123,999,683 - 124,002,073 (-)Ensemblrn6Rnor6.0
Rnor_5.0X124,086,011 - 124,088,255 (-)NCBIRnor_5.0Rnor_5.0rn5
CeleraX115,790,212 - 115,792,615 (+)NCBICelera
Cytogenetic MapXq35NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
nucleus  (IBA,IEA)

Molecular Function

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. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:28171660  


Genomics

Variants

.
Variants in Rhoxf9l1
13 total Variants

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

alimentary part of gastrointestinal system
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
1 6 19 4 4 2 2 2 17 8 19 6 45 2

Sequence


Ensembl Acc Id: ENSRNOT00000072249   ⟹   ENSRNOP00000066170
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX116,641,863 - 116,644,714 (-)Ensembl
Rnor_6.0 EnsemblX123,999,683 - 124,002,073 (-)Ensembl
RefSeq Acc Id: XM_006257483   ⟹   XP_006257545
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X121,425,908 - 121,428,443 (+)NCBI
mRatBN7.2X116,560,244 - 116,562,636 (+)NCBI
Rnor_6.0X123,999,683 - 124,002,081 (-)NCBI
Rnor_5.0X124,086,011 - 124,088,255 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001420201 (Get FASTA)   NCBI Sequence Viewer  
  NP_001420202 (Get FASTA)   NCBI Sequence Viewer  
  XP_006257545 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAQ13578 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000074383
  ENSRNOP00000074383.2
RefSeq Acc Id: XP_006257545   ⟸   XM_006257483
- Sequence:
Ensembl Acc Id: ENSRNOP00000066170   ⟸   ENSRNOT00000072249
Protein Domains
Homeobox

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F7EN82-F1-model_v2 AlphaFold F7EN82 1-201 view protein structure
AF-M0R9K0-F1-model_v2 AlphaFold M0R9K0 1-227 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:2321855 AgrOrtholog
BioCyc Gene G2FUF-1286 BioCyc
Ensembl Genes ENSRNOG00000050457 Ensembl
  ENSRNOG00000052383 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000082860 ENTREZGENE
  ENSRNOT00000082860.3 UniProtKB/TrEMBL
Gene3D-CATH Homeodomain-like UniProtKB/TrEMBL
InterPro Homeodomain UniProtKB/TrEMBL
  Homeodomain-like UniProtKB/TrEMBL
NCBI Gene 100364002 ENTREZGENE
PANTHER HOMEOBOX PROTEIN GPBOX-RELATED UniProtKB/TrEMBL
  MCG113260-RELATED-RELATED UniProtKB/TrEMBL
Pfam Homeobox UniProtKB/TrEMBL
PhenoGen Rhoxf9l1 PhenoGen
PROSITE HOMEOBOX_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000050457 RatGTEx
  ENSRNOG00000052383 RatGTEx
SMART HOX UniProtKB/TrEMBL
Superfamily-SCOP Homeodomain_like UniProtKB/TrEMBL
UniProt A6JMI7 ENTREZGENE, UniProtKB/TrEMBL
  F7EN82 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2025-07-21 Rhoxf9l1  Rhox homeobox family member 9 like 1  Rhox9l1  reproductive homeobox 9 like 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2023-09-19 Rhox9l1  reproductive homeobox 9 like 1  LOC100364002  reproductive homeobox 9-like  Symbol and Name Changed 1299863 APPROVED
2010-05-06 LOC100364002  reproductive homeobox 9-like      Symbol and Name status set to provisional 70820 PROVISIONAL