Gp1bb (glycoprotein Ib platelet subunit beta) - Rat Genome Database

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Gene: Gp1bb (glycoprotein Ib platelet subunit beta) Rattus norvegicus
Analyze
Symbol: Gp1bb
Name: glycoprotein Ib platelet subunit beta
RGD ID: 621050
Description: Predicted to enable identical protein binding activity. Predicted to be involved in several processes, including blood coagulation, intrinsic pathway; megakaryocyte development; and positive regulation of platelet activation. Predicted to be located in membrane. Predicted to be part of glycoprotein Ib-IX-V complex. Human ortholog(s) of this gene implicated in Bernard-Soulier syndrome. Orthologous to human GP1BB (glycoprotein Ib platelet subunit beta); PARTICIPATES IN platelet aggregation pathway; cell-extracellular matrix signaling pathway; INTERACTS WITH 1-naphthyl isothiocyanate; 6-propyl-2-thiouracil; acrylamide.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: glycoprotein Ib (platelet), beta polypeptide; glycoprotein Ib platelet beta subunit; glycoprotein Ib, beta polypeptide; GP-Ib beta; GPIb-beta; GPIbB; platelet glycoprotein Ib beta chain
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81195,882,561 - 95,883,738 (+)NCBIGRCr8GRCr8GRCr8
mRatBN7.21182,378,216 - 82,379,393 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1182,378,199 - 82,379,392 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1191,107,863 - 91,109,040 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01183,769,069 - 83,770,246 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01182,822,585 - 82,823,762 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01186,520,992 - 86,522,169 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1186,520,992 - 86,522,169 (+)Ensemblrn6Rnor6.0
Rnor_5.01189,620,984 - 89,622,161 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41184,369,795 - 84,370,972 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1181,154,033 - 81,155,210 (+)NCBICelera
RGSC_v3.11184,405,789 - 84,411,568 (+)NCBI
Cytogenetic Map11q23NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. The vascular biology of the glycoprotein Ib-IX-V complex. Berndt MC, etal., Thromb Haemost. 2001 Jul;86(1):178-88.
2. Patients with Bernard-Soulier syndrome and different severity of the bleeding phenotype. Boeckelmann D, etal., Blood Cells Mol Dis. 2017 Sep;67:69-74. doi: 10.1016/j.bcmd.2017.01.010. Epub 2017 Jan 22.
3. Missense mutations of the glycoprotein (GP) Ib beta gene impairing the GPIb alpha/beta disulfide linkage in a family with giant platelet disorder. Kunishima S, etal., Blood. 1997 Apr 1;89(7):2404-12.
4. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
5. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
6. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
7. A novel monoclonal antibody against the extracellular domain of GPIbbeta modulates vWF mediated platelet adhesion. Perrault C, etal., Thromb Haemost 2001 Nov;86(5):1238-48.
8. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
9. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
10. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
11. Comprehensive gene review and curation RGD comprehensive gene curation
12. Decreased thrombotic tendency in mouse models of the Bernard-Soulier syndrome. Strassel C, etal., Arterioscler Thromb Vasc Biol. 2007 Jan;27(1):241-7. Epub 2006 Nov 9.
13. Reciprocal expression of infant- and adult-preferring transcripts of CDCrel-1 septin gene in the rat neocortex. Toda S, etal., Biochem Biophys Res Commun 2000 Jul 5;273(2):723-8.
14. Bernard-soulier syndrome with a homozygous 13 base pair deletion in the signal peptide-coding region of the platelet glycoprotein Ib(beta) gene. Watanabe R, etal., Blood Coagul Fibrinolysis. 2003 Jun;14(4):387-94.
Additional References at PubMed
PMID:18674540   PMID:22871113  


Genomics

Comparative Map Data
Gp1bb
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81195,882,561 - 95,883,738 (+)NCBIGRCr8GRCr8GRCr8
mRatBN7.21182,378,216 - 82,379,393 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1182,378,199 - 82,379,392 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1191,107,863 - 91,109,040 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01183,769,069 - 83,770,246 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01182,822,585 - 82,823,762 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01186,520,992 - 86,522,169 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1186,520,992 - 86,522,169 (+)Ensemblrn6Rnor6.0
Rnor_5.01189,620,984 - 89,622,161 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41184,369,795 - 84,370,972 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1181,154,033 - 81,155,210 (+)NCBICelera
RGSC_v3.11184,405,789 - 84,411,568 (+)NCBI
Cytogenetic Map11q23NCBI
GP1BB
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382219,723,539 - 19,724,771 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2219,723,539 - 19,724,776 (+)Ensemblhg38GRCh38
GRCh372219,711,062 - 19,712,294 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362218,091,066 - 18,092,297 (+)NCBIBuild 36Build 36hg18NCBI36
Build 342218,085,619 - 18,086,848NCBI
Celera223,563,179 - 3,564,410 (+)NCBICelera
Cytogenetic Map22q11.21ENTREZGENE
HuRef223,331,052 - 3,332,283 (+)NCBIHuRef
CHM1_12219,710,630 - 19,711,861 (+)NCBICHM1_1
T2T-CHM13v2.02220,100,330 - 20,101,562 (+)NCBIT2T-CHM13v2.0
Gp1bb
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391618,439,069 - 18,441,153 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1618,439,067 - 18,441,153 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381618,620,319 - 18,622,403 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1618,620,317 - 18,622,403 (-)Ensemblmm10GRCm38
MGSCv371618,620,412 - 18,622,496 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361618,533,882 - 18,535,966 (-)NCBIMGSCv36mm8
Celera1619,194,412 - 19,196,496 (-)NCBICelera
Cytogenetic Map16A3NCBI
cM Map1611.53NCBI
Gp1bb
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544218,359,664 - 18,360,979 (-)Ensembl
ChiLan1.0NW_00495544218,359,664 - 18,360,979 (-)NCBIChiLan1.0ChiLan1.0
GP1BB
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22329,351,021 - 29,352,346 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12231,898,748 - 31,900,073 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0222,485,350 - 2,486,688 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
GP1BB
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12629,567,437 - 29,568,627 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2629,528,366 - 29,568,522 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2629,524,678 - 29,525,676 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
Gp1bb
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118139,124,933 - 139,126,427 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366193,627,999 - 3,628,859 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049366193,627,649 - 3,629,129 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GP1BB
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1451,260,963 - 51,262,114 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11451,261,097 - 51,261,903 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21454,900,394 - 54,901,102 (+)NCBISscrofa10.2Sscrofa10.2susScr3
GP1BB
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1196,020,618 - 6,021,646 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666085904,704 - 906,255 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Gp1bb
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624747352,165 - 354,170 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_004624747352,129 - 354,173 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Gp1bb
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v143,871,731 - 3,872,949 (-)NCBIRrattus_CSIRO_v1

miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:69
Count of miRNA genes:58
Interacting mature miRNAs:62
Transcripts:ENSRNOT00000040954
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70208Niddm22Non-insulin dependent diabetes mellitus QTL 223.61blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)117330848796070872Rat
1581565Pur10Proteinuria QTL 100.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)115827236396350770Rat
4889859Pur28Proteinuria QTL 2819.50.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)115892833699753367Rat
1549848Bvd6Brain ventricular dilatation QTL 63.10.0001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)117961851999753367Rat
10450831Scl80Serum cholesterol level QTL 804.70.01blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)119046178196556255Rat
10058954Gmadr7Adrenal mass QTL 72.490.0049adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)117385089499753367Rat
1300135Rf19Renal function QTL 193.38blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)115441539196071021Rat
1354656Bvd3Brain ventricular dilatation QTL 33.640.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)118295102896351019Rat
2312566Glom20Glomerulus QTL 203.60.001kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)115775483796071021Rat
724563Uae10Urinary albumin excretion QTL 106urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)112019354996351019Rat
724561Plsm4Polydactyly-luxate syndrome (PLS) morphotypes QTL 40.0003forelimb integrity trait (VT:0010562)front foot phalanges count (CMO:0001947)116796218499753367Rat
4889521Gluco62Glucose level QTL 622.820.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)116859932196497754Rat
7411658Foco27Food consumption QTL 2716.20.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)116985594399753367Rat
631506Bp104Blood pressure QTL 1042.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)117330831599753367Rat
1581572Uae35Urinary albumin excretion QTL 350.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)115827236396350770Rat
1300110Stl7Serum triglyceride level QTL 74.64blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)115107102196071021Rat

Markers in Region
RH133449  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21182,379,234 - 82,379,386 (+)MAPPERmRatBN7.2
Rnor_6.01186,522,011 - 86,522,162NCBIRnor6.0
Rnor_5.01189,622,003 - 89,622,154UniSTSRnor5.0
RGSC_v3.41184,370,814 - 84,370,965UniSTSRGSC3.4
Celera1181,155,052 - 81,155,203UniSTS
RH 3.4 Map11700.1UniSTS
Cytogenetic Map11q23UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
6 1 57 113 55 53 39 79 39 6 234 156 9 94 33 43 14 6 6

Sequence


Ensembl Acc Id: ENSRNOT00000040954   ⟹   ENSRNOP00000043041
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1182,378,199 - 82,379,392 (+)Ensembl
Rnor_6.0 Ensembl1186,520,992 - 86,522,169 (+)Ensembl
RefSeq Acc Id: NM_053930   ⟹   NP_446382
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81195,882,561 - 95,883,738 (+)NCBI
mRatBN7.21182,378,216 - 82,379,393 (+)NCBI
Rnor_6.01186,520,992 - 86,522,169 (+)NCBI
Rnor_5.01189,620,984 - 89,622,161 (+)NCBI
RGSC_v3.41184,369,795 - 84,370,972 (+)RGD
Celera1181,154,033 - 81,155,210 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_446382 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein BAA98053 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000043041.3
GenBank Protein Q9JJM7 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_446382   ⟸   NM_053930
- Peptide Label: precursor
- UniProtKB: Q9JJM7 (UniProtKB/Swiss-Prot)
- Sequence:
Ensembl Acc Id: ENSRNOP00000043041   ⟸   ENSRNOT00000040954
Protein Domains
LRRCT   LRRNT

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9JJM7-F1-model_v2 AlphaFold Q9JJM7 1-206 view protein structure

Transcriptome

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

Promoters
RGD ID:13698300
Promoter ID:EPDNEW_R8825
Type:initiation region
Name:Gp1bb_1
Description:glycoprotein Ib platelet beta subunit
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01186,521,028 - 86,521,088EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621050 AgrOrtholog
BioCyc Gene G2FUF-20666 BioCyc
Ensembl Genes ENSRNOG00000046981 Ensembl, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000040954.5 UniProtKB/Swiss-Prot
Gene3D-CATH 3.80.10.10 UniProtKB/Swiss-Prot
InterPro Cys-rich_flank_reg_C UniProtKB/Swiss-Prot
  GPIb-IX-V_Complex UniProtKB/Swiss-Prot
  LRR_dom_sf UniProtKB/Swiss-Prot
  LRRNT UniProtKB/Swiss-Prot
KEGG Report rno:116727 UniProtKB/Swiss-Prot
NCBI Gene 116727 ENTREZGENE
PANTHER GLYCOPROTEIN IB BETA UniProtKB/Swiss-Prot
  PLATELET GLYCOPROTEIN IB BETA CHAIN UniProtKB/Swiss-Prot
Pfam LRRNT UniProtKB/Swiss-Prot
PhenoGen Gp1bb PhenoGen
RatGTEx ENSRNOG00000046981 RatGTEx
SMART LRRCT UniProtKB/Swiss-Prot
  LRRNT UniProtKB/Swiss-Prot
Superfamily-SCOP L domain-like UniProtKB/Swiss-Prot
UniProt GP1BB_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2018-05-25 Gp1bb  glycoprotein Ib platelet subunit beta  Gp1bb  glycoprotein Ib platelet beta subunit  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2016-01-20 Gp1bb  glycoprotein Ib platelet beta subunit  Gp1bb  glycoprotein Ib (platelet), beta polypeptide  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-26 Gp1bb  glycoprotein Ib (platelet), beta polypeptide  Gp1bb  glycoprotein Ib, beta polypeptide  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-05-02 Gp1bb  glycoprotein Ib, beta polypeptide  Sept5  septin 5  Symbol and Name updated to reflect Human and Mouse nomenclature 1299863 APPROVED
2005-01-20 Sept5  septin 5  Gp1bb  glycoprotein Ib (platelet), beta polypeptide  Symbol and Name updated 1299863 APPROVED
2002-08-07 Gp1bb  glycoprotein Ib (platelet), beta polypeptide      Symbol and Name status set to provisional 70820 PROVISIONAL