Obp2b (odorant binding protein 2B) - Rat Genome Database

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Gene: Obp2b (odorant binding protein 2B) Mus musculus
Analyze
Symbol: Obp2b
Name: odorant binding protein 2B
RGD ID: 2294213
MGI Page MGI
Description: Predicted to enable odorant binding activity. Predicted to be active in extracellular space. Orthologous to human OBP2A (odorant binding protein 2A).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Lcn; Lcn14; lipocalin 14; novel lipocalin protein; odorant-binding protein 2a
RGD Orthologs
Human
Rat
Bonobo
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39225,604,120 - 25,630,136 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl225,627,021 - 25,630,109 (+)EnsemblGRCm39 Ensembl
GRCm38225,714,109 - 25,740,124 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl225,737,009 - 25,740,097 (+)EnsemblGRCm38mm10GRCm38
MGSCv37225,592,529 - 25,595,617 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36225,558,946 - 25,561,623 (+)NCBIMGSCv36mm8
Celera225,463,235 - 25,466,323 (+)NCBICelera
Cytogenetic Map2A3NCBI
cM Map217.91NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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

Biological Process

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:21267068   PMID:21677750   PMID:21873635   PMID:26592241   PMID:30782214  


Genomics

Comparative Map Data
Obp2b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39225,604,120 - 25,630,136 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl225,627,021 - 25,630,109 (+)EnsemblGRCm39 Ensembl
GRCm38225,714,109 - 25,740,124 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl225,737,009 - 25,740,097 (+)EnsemblGRCm38mm10GRCm38
MGSCv37225,592,529 - 25,595,617 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36225,558,946 - 25,561,623 (+)NCBIMGSCv36mm8
Celera225,463,235 - 25,466,323 (+)NCBICelera
Cytogenetic Map2A3NCBI
cM Map217.91NCBI
OBP2B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh389133,205,279 - 133,223,255 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl9133,205,277 - 133,209,250 (-)EnsemblGRCh38hg38GRCh38
GRCh379136,080,666 - 136,084,637 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 369135,070,487 - 135,074,449 (-)NCBINCBI36Build 36hg18NCBI36
Build 349133,110,219 - 133,114,182NCBI
Celera9106,622,026 - 106,625,988 (-)NCBICelera
Cytogenetic Map9q34.2NCBI
HuRef9105,573,630 - 105,577,592 (-)NCBIHuRef
CHM1_19136,230,489 - 136,234,451 (-)NCBICHM1_1
T2T-CHM13v2.09145,418,863 - 145,436,839 (-)NCBIT2T-CHM13v2.0
Obp2b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8328,960,375 - 28,983,394 (+)NCBIGRCr8
mRatBN7.238,582,074 - 8,585,258 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl38,582,074 - 8,585,258 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxPNT010000191.130,986 - 34,173 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.031,243,692 - 1,246,879 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0318,468,471 - 18,471,658 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.032,969,692 - 3,002,956 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl32,970,090 - 3,211,910 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.038,528,160 - 8,543,525 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.032,951,129 - 2,954,333 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.433,934,278 - 3,937,462 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Cytogenetic Map3p13NCBI
OBP2B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2116,145,062 - 6,190,646 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan196,147,397 - 6,189,932 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v09104,291,500 - 104,331,592 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.19132,939,328 - 132,943,153 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9132,939,353 - 132,943,117 (-)Ensemblpanpan1.1panPan2
OBP2B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1124,932,868 - 4,935,739 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366607910,723,572 - 10,726,322 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Obp2b
780 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:175
Count of miRNA genes:161
Interacting mature miRNAs:166
Transcripts:ENSMUST00000114192
Prediction methods:Miranda, 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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1301838Sluc16_msusceptibility to lung cancer 16 (mouse)Not determined2126529589Mouse
12904743Carcdq3_mcardiac collagen deposition QTL 3 (mouse)2323494028179150Mouse
1301769Orgwq2_morgan weight QTL 2 (mouse)Not determined2388712693421651Mouse
1301980Fcsa5_mfemoral cross-sectional area 5 (mouse)Not determined2767911541679261Mouse
1301790Pcfm1_mperiosteal circumference and femur length 1 (mouse)Not determined2823629642236396Mouse
10043876Adip22_madiposity 22 (mouse)Not determined2830805142308240Mouse
1300624Insq7_minsulin QTL 7 (mouse)Not determined2938444643384575Mouse
10755513Amzn4_manatomical modifier of Zfp423 4 (mouse)2938444643384575Mouse
12903993Opfaq1_mopen field activity QTL 1 (mouse)2967669127022642Mouse
8552707Cia23_mcollagen induced arthritis QTL 23 (mouse)Not determined21212953766556453Mouse
1301641Sbmd2_mspinal bone mineral density 2 (mouse)Not determined21421456748214713Mouse
1357881Estoq1_membryo survival total QTL 1 (mouse)Not determined220897778118894840Mouse
1357454Kidq1_mkidney weight QTL 1 (mouse)Not determined220897778118894840Mouse
1357436Splq1_mspleen weight QTL 1 (mouse)Not determined220897778118894840Mouse
39128209Lwq14_mliver weight QTL 14 (mouse)220897778118894840Mouse
1558899Egq1_mearly growth QTL 1 (mouse)Not determined220897778118894840Mouse
1558966W10q9_mweight 10 weeks QTL 9 (mouse)Not determined220897778118894840Mouse
1558915W3q1_mweight 3 weeks QTL 1 (mouse)Not determined220897778118894840Mouse
1558738W6q1_mweight 6 weeks QTL 1 (mouse)Not determined220897778118894840Mouse
1357681Hrtq1_mheart weight QTL 1 (mouse)Not determined220897778118894840Mouse
1301376Etohc1_methanol consumption 1 (mouse)Not determined22112972555129871Mouse
4141708Pbwg1.2_mpostnatal body weight growth 1.2 (mouse)Not determined2112972555129871Mouse
13463470Tubisq1_mtubulointerstitial injury severity, QTL 1 (mouse)22368914557689269Mouse
1302174Dssc2_mdextran sodium sulfate induced colitis QTL2 (mouse)Not determined224224632148700377Mouse
26884438Sklq12_mskull length QTL 12, 16 week (mouse)22459001254890012Mouse
8552705Cia25_mcollagen induced arthritis 25 (mouse)Not determined22467911533523172Mouse
8552706Cia24_mcollagen induced arthritis QTL 24 (mouse)Not determined22467911533523172Mouse
12792980Fbmd1_mfemoral bone mineral density 1, females only (mouse)22503449245034492Mouse
4142130Pgis2_mproteoglycan induced spondylitis 2 (mouse)Not determined22530805156971811Mouse


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000114192   ⟹   ENSMUSP00000109830
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl225,627,021 - 25,630,109 (+)Ensembl
GRCm38.p6 Ensembl225,737,009 - 25,740,097 (+)Ensembl
RefSeq Acc Id: NM_001378280   ⟹   NP_001365209
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39225,627,019 - 25,630,136 (+)NCBI
GRCm38225,737,007 - 25,740,124 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017319078   ⟹   XP_017174567
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39225,604,120 - 25,630,136 (+)NCBI
GRCm38225,714,109 - 25,740,124 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001365209 (Get FASTA)   NCBI Sequence Viewer  
  XP_017174567 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000109830
  ENSMUSP00000109830.2
Reference Protein Sequences
RefSeq Acc Id: XP_017174567   ⟸   XM_017319078
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: NP_001365209   ⟸   NM_001378280
- Peptide Label: precursor
- UniProtKB: A2BHR0 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSMUSP00000109830   ⟸   ENSMUST00000114192
Protein Domains
Lipocalin/cytosolic fatty-acid binding

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A2BHR0-F1-model_v2 AlphaFold A2BHR0 1-176 view protein structure

Promoters
RGD ID:6876650
Promoter ID:EPDNEW_M1776
Type:single initiation site
Name:Obp2b_1
Description:Mus musculus odorant binding protein 2B , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38225,737,011 - 25,737,071EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:3651927 AgrOrtholog
Ensembl Genes ENSMUSG00000079539 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000114192 ENTREZGENE
  ENSMUST00000114192.2 UniProtKB/TrEMBL
Gene3D-CATH 2.40.128.20 UniProtKB/TrEMBL
InterPro Calycin UniProtKB/TrEMBL
  Lipocalin UniProtKB/TrEMBL
  Lipocln_cytosolic_FA-bd_dom UniProtKB/TrEMBL
  vonEbner_gland UniProtKB/TrEMBL
MGD MGI:3651927 ENTREZGENE
NCBI Gene 383678 ENTREZGENE
PANTHER ODORANT-BINDING PROTEIN 2A-RELATED UniProtKB/TrEMBL
  PTHR11430 UniProtKB/TrEMBL
Pfam Lipocalin UniProtKB/TrEMBL
PhenoGen Obp2b PhenoGen
PRINTS VNEBNERGLAND UniProtKB/TrEMBL
Superfamily-SCOP Calycin UniProtKB/TrEMBL
UniProt A2BHR0 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-09-19 Obp2b  odorant binding protein 2B  Lcn14  lipocalin 14  Symbol and/or name change 5135510 APPROVED