Rhox9l1 (reproductive homeobox 9 like 1) - Rat Genome Database

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Gene: Rhox9l1 (reproductive homeobox 9 like 1) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Rhox9l1 (Ensembl: LOC100364002)
Name: reproductive homeobox 9 like 1 (Ensembl:reproductive homeobox 9-like)
RGD ID: 2321855
Description: Predicted to enable DNA binding activity. Predicted to be located in nucleus. Orthologous to human RHOXF2B (Rhox homeobox family member 2B).
Type: protein-coding
RefSeq Status: MODEL
Previously known as: homeobox protein PSX3; LOC100364002; Psx3; reproductive homeobox 9-like; rhox homeobox family member 2; rhox homeobox family member 2-like
RGD Orthologs
Alliance Genes
More Info homologs ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X121,425,908 - 121,428,443 (+)NCBIGRCr8
mRatBN7.2X116,560,244 - 116,562,636 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX116,560,236 - 116,562,774 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0X123,999,683 - 124,002,081 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX123,999,683 - 124,002,073 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X124,086,011 - 124,088,255 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
CeleraX115,790,212 - 115,792,615 (+)NCBICelera
Cytogenetic MapXq35NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
nucleus  (IEA)

Molecular Function
DNA binding  (IEA)

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 Rhox9l1
1 total Variants

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X14843113120568734Rat
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X41052407146860749Rat
61431Cia19Collagen induced arthritis QTL 194.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X65612192120568734Rat
724551Glom1Glomerulus QTL 12.80.0004kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)X75294106120294106Rat
1598872Memor14Memory QTL 144.5exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X93956491138956491Rat
738025Stresp3Stress response QTL 34.610.0066stress-related behavior trait (VT:0010451)defensive burying - approachX100567703150256146Rat
1598809Memor15Memory QTL 154.4exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X103312877148312877Rat
1598856Memor1Memory QTL 11.9exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)X103312877148312877Rat
738029Stresp2Stress response QTL 23.40.0004stress-related behavior trait (VT:0010451)defensive burying - approachX112934952138400867Rat
5685004Bss104Bone structure and strength QTL 1043.9tibia area (VT:1000281)tibia area measurement (CMO:0001382)X113805422126975220Rat
10059603Bw174Body weight QTL 1743.40.025body mass (VT:0001259)body weight (CMO:0000012)X113937816152453651Rat


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

circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system nervous system renal system reproductive system
High
Medium 1
Low 13
Below cutoff 6 4 2 2 2 19 4 14

Sequence


Reference Sequences
RefSeq 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 XP_006257545 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAQ13578 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000074383
  ENSRNOP00000074383.2
Reference Protein Sequences
RefSeq Acc Id: XP_006257545   ⟸   XM_006257483
- UniProtKB: F7EN82 (UniProtKB/TrEMBL)
- Sequence:
RefSeq 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 ENSRNOT00000082860.2 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 Rhox9l1 PhenoGen
PROSITE HOMEOBOX_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000050457 RatGTEx
  ENSRNOG00000052383 RatGTEx
SMART HOX UniProtKB/TrEMBL
Superfamily-SCOP Homeodomain_like UniProtKB/TrEMBL
UniProt F7EN82 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
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