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

Send us a Message



Rat Genome Database
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Grant Resources Citing RGD About Us Contact Us
Search by Genomic Position Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quantitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Behavioral & Substance Use Disorder Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
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 active 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 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl177,211,678 - 77,213,602 (+)EnsemblGRCr8
GRCr8 EnsemblX90,706,748 - 90,708,555 (-)EnsemblGRCr8
mRatBN7.2168,182,725 - 68,184,559 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl168,183,045 - 68,184,743 (+)EnsemblmRatBN7.2
Rnor_6.0171,765,971 - 71,767,523 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl171,765,944 - 71,767,411 (+)EnsemblRnor_6.0 Ensemblrn6Rnor6.0
Rnor_5.0173,156,242 - 73,157,781 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4166,892,684 - 66,894,181 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera168,621,842 - 68,627,371 (+)NCBICelera
Cytogenetic Map1q12NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
nucleus  (IBA,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. GOA pipeline RGD automated data pipeline

Genomics

Variants

.
Variants in Obox2l1
7 total Variants

QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1331732Srn4Serum renin concentration QTL 44.467renin activity (VT:0005581)plasma renin activity level (CMO:0000116)14345783787558729Rat
1578649Bmd8Bone mineral density QTL 84.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)151940904101229020Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)151941022208479811Rat
1358359Sradr1Stress Responsive Adrenal Weight QTL 14.74adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)139728272132889942Rat
4889929Bss87Bone structure and strength QTL 876.7tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)14630261591302615Rat
1331792Rf29Renal function QTL 294.589urine potassium amount (VT:0010539)urine potassium level (CMO:0000128)14345783787558729Rat
2313062Bmd73Bone mineral density QTL 733.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)14630261591302615Rat
1578654Bss10Bone structure and strength QTL 104femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)151940904168768703Rat
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)14350995288509952Rat
1354643Foco2Food consumption QTL 27.170.0001eating behavior trait (VT:0001431)food intake rate (CMO:0000427)14212296887122968Rat
2313065Bss67Bone structure and strength QTL 673.10.0001tibia area (VT:1000281)tibia total energy absorbed before break (CMO:0001736)14630261591302615Rat
631495Bp96Blood pressure QTL 964.52arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)166404680111404680Rat
2313069Bss68Bone structure and strength QTL 682.90.0001tibia size trait (VT:0100001)tibia total energy absorbed before break (CMO:0001736)14630261591302615Rat
70225Bp58Blood pressure QTL 583.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134184556172281316Rat
2313075Bss66Bone structure and strength QTL 663.40.0001tibia length (VT:0004357)tibia length (CMO:0000450)14630261591302615Rat
2298545Neuinf8Neuroinflammation QTL 84.6nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)166009857160501508Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134565911208798288Rat
1331778Rf28Renal function QTL 284.66urine potassium amount (VT:0010539)urine potassium excretion rate (CMO:0000761)14345783787558729Rat
2313077Bss69Bone structure and strength QTL 693.50.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)14630261591302615Rat
1302788Scl19Serum cholesterol QTL 194.60.001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)166400974132889942Rat
2313402Anxrr24Anxiety related response QTL 24aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)151511344153680016Rat
1331785Rf27Renal function QTL 274.643urine sodium amount (VT:0006274)urine sodium level (CMO:0000129)13070837587558729Rat
61342Bp27Blood pressure QTL 273.40.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16540563796805205Rat
1300172Bp172Blood pressure QTL 1723.56arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)13456572679565726Rat
4889962Bss94Bone structure and strength QTL 943.8tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)15190920691302615Rat
6903308Scl36Serum cholesterol QTL 3620.0125blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)158769992103769992Rat
2300164Bmd44Bone mineral density QTL 445.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)166077886111077886Rat
2313092Bmd72Bone mineral density QTL 722.50.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)14630261591302615Rat
2313097Bss70Bone structure and strength QTL 703.50.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)14630261591302615Rat
9589820Insglur3Insulin/glucose ratio QTL 310.750.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)14350995288509952Rat
152025249Scl82Serum cholesterol level QTL 824.77blood cholesterol amount (VT:0000180)152891222109116986Rat
1354599Bw29Body weight QTL 293.460.001body mass (VT:0001259)body weight (CMO:0000012)14212296887122968Rat
4889919Bss86Bone structure and strength QTL 864.1tibia area (VT:1000281)tibia midshaft total cross-sectional area (CMO:0001715)14630261591302615Rat
8552948Pigfal11Plasma insulin-like growth factor 1 level QTL 114.7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)14350995288509952Rat

Markers in Region
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


Expression

RNA-SEQ Expression

ectoderm
endocrine system
endoderm
entire extraembryonic component
exocrine system
hemolymphoid system
hepatobiliary system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
5 3 5 3 1 2 1 8 5 1 5 1 83 4

Sequence


Ensembl Acc Id: ENSRNOT00000045660   ⟹   ENSRNOP00000051380
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl177,211,904 - 77,213,594 (+)Ensembl
mRatBN7.2 Ensembl168,183,045 - 68,184,542 (+)Ensembl
Rnor_6.0 Ensembl9101,197,255 - 101,198,758 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000046416   ⟹   ENSRNOP00000048058
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX90,706,748 - 90,708,555 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000050817   ⟹   ENSRNOP00000043870
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl177,231,611 - 77,233,108 (+)Ensembl
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
GRCr8 Ensembl177,211,904 - 77,213,602 (+)Ensembl
mRatBN7.2 Ensembl168,183,045 - 68,184,743 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000119453   ⟹   ENSRNOP00000082904
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl177,231,611 - 77,233,309 (+)Ensembl
mRatBN7.2 Ensembl168,202,754 - 68,204,452 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000148691   ⟹   ENSRNOP00000100971
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl177,211,678 - 77,213,594 (+)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 Sequences
Protein RefSeqs XP_001077719 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000043870.1
  ENSRNOP00000048058.6
  ENSRNOP00000051380
  ENSRNOP00000051380.3
  ENSRNOP00000082904.1
  ENSRNOP00000093280.1
  ENSRNOP00000100971.1
RefSeq Acc Id: XP_001077719   ⟸   XM_001077719
- UniProtKB: D3ZYG1 (UniProtKB/TrEMBL),   F1LTG3 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000074798   ⟸   ENSRNOT00000091103
Ensembl Acc Id: ENSRNOP00000051380   ⟸   ENSRNOT00000045660
Ensembl Acc Id: ENSRNOP00000043870   ⟸   ENSRNOT00000050817
Ensembl Acc Id: ENSRNOP00000082904   ⟸   ENSRNOT00000119453
Ensembl Acc Id: ENSRNOP00000093280   ⟸   ENSRNOT00000094214
Ensembl Acc Id: ENSRNOP00000100971   ⟸   ENSRNOT00000148691
Ensembl Acc Id: ENSRNOP00000048058   ⟸   ENSRNOT00000046416
Protein Domains
Homeobox

Protein Structures
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

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:1585091 AgrOrtholog
BioCyc Gene G2FUF-60913 BioCyc
Ensembl Genes ENSRNOG00000021972 Ensembl, UniProtKB/TrEMBL
  ENSRNOG00000029702 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00000060136 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000045660 ENTREZGENE
  ENSRNOT00000045660.4 UniProtKB/TrEMBL
  ENSRNOT00000046416.6 UniProtKB/TrEMBL
  ENSRNOT00000050817.3 UniProtKB/TrEMBL
  ENSRNOT00000094214.2 UniProtKB/TrEMBL
  ENSRNOT00000119453.2 UniProtKB/TrEMBL
  ENSRNOT00000148691.1 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
  A0ABK0L002_RAT UniProtKB/TrEMBL
  D3ZYG1 ENTREZGENE, UniProtKB/TrEMBL
  F1LTG3 ENTREZGENE, UniProtKB/TrEMBL
  F1LV35_RAT UniProtKB/TrEMBL


Nomenclature History
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