Obox2l1 (oocyte specific homeobox 2 like 1) - Rat Genome Database

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Gene: Obox2l1 (oocyte specific homeobox 2 like 1) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Obox2l1
Name: oocyte specific homeobox 2 like 1
RGD ID: 1585091
Description: Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in cell differentiation; embryonic skeletal system development; and regulation of transcription by RNA polymerase II. Predicted to be located in nucleus.
Type: protein-coding
RefSeq Status: MODEL
Previously known as: homeobox protein Hox-B3a; homeobox protein Hox-B3a-like; LOC502295; LOC691325; oocyte-specific homeobox protein 5; retinal homeobox protein Rx3-like; RGD1564236; similar to OBOX3; similar to oocyte specific homeobox 3
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8177,211,572 - 77,213,511 (+)NCBIGRCr8
mRatBN7.2168,182,725 - 68,184,559 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl168,183,045 - 68,184,743 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0171,765,971 - 71,767,523 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl171,765,944 - 71,767,411 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0173,156,242 - 73,157,781 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4166,892,684 - 66,894,181 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera168,621,842 - 68,627,371 (+)NCBICelera
Cytogenetic Map1q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model



Biological Process

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Obox2l1Ratcell differentiation involved_inIBAFB:FBgn0000529 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Obox2l1Ratembryonic skeletal system development involved_inIBAMGI:94901 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Obox2l1Ratregulation of DNA-templated transcription involved_inIEAInterPro:IPR0179701600115GO_REF:0000002InterProGO_REF:0000002
Obox2l1Ratregulation of transcription by RNA polymerase II involved_inIBAMGI:101926 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033

Cellular Component

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Obox2l1Ratnucleus located_inIEAUniProtKB-KW:KW-05391600115GO_REF:0000043UniProtGO_REF:0000043
Obox2l1Ratnucleus located_inIEAUniRule:UR0004010371600115GO_REF:0000104UniProtGO_REF:0000104
Obox2l1Ratnucleus located_inIEAUniProtKB-SubCell:SL-01911600115GO_REF:0000044UniProtGO_REF:0000044

Molecular Function

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Obox2l1RatDNA binding enablesIEAUniRule:UR0004010371600115GO_REF:0000104UniProtGO_REF:0000104
Obox2l1RatDNA binding enablesIEAUniProtKB-KW:KW-0238 and UniProtKB-KW:KW-03711600115GO_REF:0000043UniProtGO_REF:0000043
Obox2l1RatDNA binding enablesIEAInterPro:IPR0013561600115GO_REF:0000002InterProGO_REF:0000002
Obox2l1RatDNA-binding transcription factor activity, RNA polymerase II-specific enablesIBAMGI:101926 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Obox2l1RatDNA-binding transcription factor activity, RNA polymerase II-specific enablesIEAInterPro:IPR0179701600115GO_REF:0000002InterProGO_REF:0000002
Obox2l1RatRNA polymerase II cis-regulatory region sequence-specific DNA binding enablesIBAMGI:101926 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033


#
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. GOA pipeline RGD automated data pipeline


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Variants in Obox2l1
29 total Variants

1 to 10 of 46 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
1331732Srn4Serum renin concentration QTL 44.467renin activity (VT:0005581)plasma renin activity level (CMO:0000116)13523959878430678Rat
2313059Bss55Bone structure and strength QTL 553.20.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143284731118944897Rat
631688Hcas2Hepatocarcinoma susceptibility QTL 230.0001liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)15925874115540829Rat
1578649Bmd8Bone mineral density QTL 84.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)14939317294393172Rat
1358359Sradr1Stress Responsive Adrenal Weight QTL 14.74adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)130882023123479925Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)149393289199050459Rat
4889929Bss87Bone structure and strength QTL 876.7tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)15389511782174945Rat
1331792Rf29Renal function QTL 294.589urine potassium amount (VT:0010539)urine potassium level (CMO:0000128)13523959878430678Rat
2313062Bmd73Bone mineral density QTL 733.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)11148131282174945Rat
8552900Pigfal1Plasma insulin-like growth factor 1 level QTL 17.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)13483685879836858Rat

1 to 10 of 46 rows
D1Got371  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2168,186,460 - 68,186,754 (+)MAPPERmRatBN7.2
Rnor_6.0171,769,383 - 71,769,678NCBIRnor6.0
Rnor_6.0171,770,060 - 71,770,348NCBIRnor6.0
Rnor_5.0173,159,654 - 73,159,949UniSTSRnor5.0
RGSC_v3.4166,910,930 - 66,911,218UniSTSRGSC3.4
RGSC_v3.4166,896,096 - 66,896,391UniSTSRGSC3.4
Celera168,890,327 - 68,890,622UniSTS
Cytogenetic Map1q12UniSTS
AU049812  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2168,186,520 - 68,186,779 (+)MAPPERmRatBN7.2
Rnor_6.0171,770,035 - 71,770,290NCBIRnor6.0
Rnor_6.0171,769,443 - 71,769,703NCBIRnor6.0
Rnor_5.0173,159,714 - 73,159,974UniSTSRnor5.0
RGSC_v3.4166,910,990 - 66,911,243UniSTSRGSC3.4
RGSC_v3.4166,896,156 - 66,896,416UniSTSRGSC3.4
Celera168,890,302 - 68,890,562UniSTS
Cytogenetic Map1q12UniSTS




ectoderm
endocrine system
endoderm
exocrine system
hepatobiliary system
mesenchyme
nervous system
reproductive system
5 1 1 1 1 1 5 36


RefSeq Transcripts XM_001077719 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006223072 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAXUCZ010000001 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000045660   ⟹   ENSRNOP00000051380
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl168,183,045 - 68,184,542 (+)Ensembl
Rnor_6.0 Ensembl9101,197,255 - 101,198,758 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000050817   ⟹   ENSRNOP00000043870
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl168,202,754 - 68,204,251 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000091103   ⟹   ENSRNOP00000074798
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl171,765,944 - 71,767,411 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000094214   ⟹   ENSRNOP00000093280
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl168,183,045 - 68,184,743 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000119453   ⟹   ENSRNOP00000082904
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl168,202,754 - 68,204,452 (+)Ensembl
RefSeq Acc Id: XM_001077719   ⟹   XP_001077719
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8177,211,572 - 77,213,511 (+)NCBI
mRatBN7.2168,182,725 - 68,184,559 (+)NCBI
Rnor_6.0171,765,971 - 71,767,523 (+)NCBI
Rnor_5.0173,156,242 - 73,157,781 (+)NCBI
RGSC_v3.4166,892,684 - 66,894,181 (+)RGD
Sequence:
Protein RefSeqs XP_001077719 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000048058.5
  ENSRNOP00000051380
  ENSRNOP00000051380.3
  ENSRNOP00000082904.1
  ENSRNOP00000093280.1
RefSeq Acc Id: XP_001077719   ⟸   XM_001077719
- UniProtKB: D3ZYG1 (UniProtKB/TrEMBL),   F1LV35 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000074798   ⟸   ENSRNOT00000091103
Ensembl Acc Id: ENSRNOP00000051380   ⟸   ENSRNOT00000045660
Ensembl Acc Id: ENSRNOP00000043870   ⟸   ENSRNOT00000050817
Ensembl Acc Id: ENSRNOP00000082904   ⟸   ENSRNOT00000119453
Homeobox

Name Modeler Protein Id AA Range Protein Structure
AF-D3ZYG1-F1-model_v2 AlphaFold D3ZYG1 1-312 view protein structure
AF-A0A0G2K8Z7-F1-model_v2 AlphaFold A0A0G2K8Z7 1-344 view protein structure


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



1 to 36 of 36 rows
Database
Acc Id
Source(s)
BioCyc Gene G2FUF-60913 BioCyc
Ensembl Genes ENSRNOG00000021972 UniProtKB/TrEMBL
  ENSRNOG00000029702 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00000060136 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000045660 ENTREZGENE
  ENSRNOT00000045660.3 UniProtKB/TrEMBL
  ENSRNOT00000046416.5 UniProtKB/TrEMBL
  ENSRNOT00000094214.1 UniProtKB/TrEMBL
  ENSRNOT00000119453.1 UniProtKB/TrEMBL
Gene3D-CATH Homeodomain-like UniProtKB/TrEMBL
InterPro Distal-less_Homeobox_TF UniProtKB/TrEMBL
  EMX-VAX-Noto_Homeobox_TFs UniProtKB/TrEMBL
  Homeobox-like_sf UniProtKB/TrEMBL
  Homeobox_CS UniProtKB/TrEMBL
  Homeobox_dom UniProtKB/TrEMBL
KEGG Report rno:691325 UniProtKB/TrEMBL
NCBI Gene 691325 ENTREZGENE
PANTHER E5-RELATED UniProtKB/TrEMBL
  HOMEOBOX PROTEIN UniProtKB/TrEMBL
  HOMEOBOX PROTEIN UniProtKB/TrEMBL
  HOMEOBOX PROTEIN EMX-RELATED UniProtKB/TrEMBL
  OBOX1-RELATED UniProtKB/TrEMBL
  TETRAPEPTIDE REPEAT HOMEOBOX 1 UniProtKB/TrEMBL
Pfam Homeodomain UniProtKB/TrEMBL
PhenoGen Obox2l1 PhenoGen
PROSITE HOMEOBOX_1 UniProtKB/TrEMBL
  HOMEOBOX_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000021972 RatGTEx
  ENSRNOG00000029702 RatGTEx
  ENSRNOG00000060136 RatGTEx
SMART HOX UniProtKB/TrEMBL
Superfamily-SCOP SSF46689 UniProtKB/TrEMBL
UniProt A0A8I5ZYU4_RAT UniProtKB/TrEMBL
  A0A8I6AJS2_RAT UniProtKB/TrEMBL
  D3ZYG1 ENTREZGENE, UniProtKB/TrEMBL
  F1LV35 ENTREZGENE, UniProtKB/TrEMBL
1 to 36 of 36 rows


Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-09-19 Obox2l1  oocyte specific homeobox 2 like 1  LOC691325  similar to oocyte specific homeobox 3  Symbol and Name Changed 1299863 APPROVED
2021-03-09 LOC691325  similar to oocyte specific homeobox 3  RGD1564236  similar to OBOX3  Data merged from RGD:1564236 737654 PROVISIONAL
2008-04-30 RGD1564236  similar to OBOX3   RGD1564236_predicted  similar to OBOX3 (predicted)  'predicted' is removed 2292626 APPROVED
2006-11-19 LOC691325  similar to oocyte specific homeobox 3      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-03-07 RGD1564236_predicted  similar to OBOX3 (predicted)  LOC502295  similar to OBOX3  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC502295  similar to OBOX3      Symbol and Name status set to provisional 70820 PROVISIONAL