Bap1 (Brca1 associated protein 1) - Rat Genome Database

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Gene: Bap1 (Brca1 associated protein 1) Rattus norvegicus
Analyze
Symbol: Bap1
Name: Brca1 associated protein 1
RGD ID: 1311938
Description: Predicted to enable chromatin DNA binding activity; cysteine-type deubiquitinase activity; and histone H2A deubiquitinase activity. Predicted to be involved in several processes, including common myeloid progenitor cell proliferation; hematopoietic stem cell homeostasis; and myeloid cell differentiation. Predicted to act upstream of or within several processes, including macrophage homeostasis; regulation of cytokine production involved in inflammatory response; and regulation of inflammatory response. Predicted to be located in cytosol and nucleoplasm. Predicted to be part of PR-DUB complex. Predicted to be active in cytoplasm. Human ortholog(s) of this gene implicated in basal cell carcinoma; extrahepatic bile duct adenocarcinoma; and uveal melanoma. Orthologous to human BAP1 (BRCA1 associated protein 1); PARTICIPATES IN histone modification pathway; INTERACTS WITH 2,4-dinitrotoluene; acrylamide; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: BRCA1 associated protein-1 (ubiquitin carboxy-terminal hydrolase); BRCA1-associated protein 1; LOC306257; ubiquitin carboxyl-terminal hydrolase BAP1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8166,453,126 - 6,461,952 (+)NCBIGRCr8
mRatBN7.2166,446,709 - 6,455,535 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl166,446,709 - 6,455,535 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx166,458,869 - 6,467,694 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0167,603,765 - 7,612,590 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0166,466,025 - 6,474,848 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0167,336,685 - 7,345,511 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl167,336,685 - 7,345,511 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0167,265,075 - 7,273,901 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4166,684,470 - 6,693,296 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1166,684,871 - 6,691,564 (+)NCBI
Celera168,733,498 - 8,742,324 (-)NCBICelera
Cytogenetic Map16p16NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
adenoid cystic carcinoma  (ISO)
adrenocortical carcinoma  (ISO)
basal cell carcinoma  (ISO)
Bone Neoplasms  (ISO)
Breast Neoplasms  (ISO)
Central Nervous System Neoplasms  (ISO)
cholangiocarcinoma  (ISO)
clear cell renal cell carcinoma  (ISO)
Colonic Neoplasms  (ISO)
congenital disorder of glycosylation In  (ISO)
congenital myopathy 5  (ISO)
Ewing sarcoma  (ISO)
extrahepatic bile duct adenocarcinoma  (ISO)
familial melanoma  (ISO)
ganglioglioma  (ISO)
genetic disease  (ISO)
Genetic Predisposition to Disease  (ISO)
Head and Neck Neoplasms  (ISO)
Hereditary Neoplastic Syndromes  (ISO)
high grade glioma  (ISO)
intrahepatic cholangiocarcinoma  (ISO)
Kidney Neoplasms  (ISO)
KURY-ISIDOR SYNDROME  (ISO)
leukemia  (ISO)
lipoma  (ISO)
Liver Neoplasms  (ISO)
lung adenocarcinoma  (ISO)
Lung Neoplasms  (ISO)
malignant mesothelioma  (ISO)
malignant pleural mesothelioma  (ISO)
medulloblastoma  (ISO)
meningioma  (ISO)
Mesothelioma  (ISO)
mucoepidermoid carcinoma  (ISO)
multiple myeloma  (ISO)
myelodysplastic syndrome  (ISS)
Neurodevelopmental Disorders  (ISO)
neuroendocrine tumor  (ISO)
Nevi and Melanomas  (ISO)
Nevus, Epithelioid and Spindle Cell  (ISO)
ocular melanoma  (ISO)
Ovarian Neoplasms  (ISO)
pancreatic cancer  (ISO)
paraganglioma  (ISO)
Prostatic Neoplasms  (ISO)
renal cell carcinoma  (ISO)
Stomach Neoplasms  (ISO)
Testicular Neoplasms  (ISO)
thymoma  (ISO)
Tumor Predisposition Syndrome  (ISO)
Tumor Predisposition Syndrome 1  (ISO)
urinary bladder cancer  (ISO)
Uterine Neoplasms  (ISO)
uveal melanoma  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytoplasm  (IBA,IEA,ISO,ISS)
cytosol  (IEA,ISO)
nucleoplasm  (IEA,ISO)
nucleus  (IEA,ISO,ISS)
PR-DUB complex  (IEA,ISO,ISS)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. H2A-DUBbing the mammalian epigenome: expanding frontiers for histone H2A deubiquitinating enzymes in cell biology and physiology. Belle JI and Nijnik A, Int J Biochem Cell Biol. 2014 May;50:161-74. doi: 10.1016/j.biocel.2014.03.004. Epub 2014 Mar 16.
2. Mutation profiling in cholangiocarcinoma: prognostic and therapeutic implications. Churi CR, etal., PLoS One. 2014 Dec 23;9(12):e115383. doi: 10.1371/journal.pone.0115383. eCollection 2014.
3. Germline BAP1 mutations predispose also to multiple basal cell carcinomas. de la Fouchardiere A, etal., Clin Genet. 2014 Jul 31. doi: 10.1111/cge.12472.
4. 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.
5. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
6. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
7. Intrahepatic cholangiocarcinoma frequently shows loss of BAP1 and PBRM1 expression, and demonstrates specific clinicopathological and genetic characteristics with BAP1 loss. Misumi K, etal., Histopathology. 2017 Apr;70(5):766-774. doi: 10.1111/his.13127. Epub 2017 Jan 18.
8. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
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. BRCA1-Associated Protein 1 (BAP1) Immunohistochemical Expression as a Diagnostic Tool in Malignant Pleural Mesothelioma Classification: A Large Retrospective Study. Righi L, etal., J Thorac Oncol. 2016 Nov;11(11):2006-2017. doi: 10.1016/j.jtho.2016.06.020. Epub 2016 Jul 13.
12. Prognostic parameters in uveal melanoma and their association with BAP1 expression. van Essen TH, etal., Br J Ophthalmol. 2014 Aug 21. pii: bjophthalmol-2014-305047. doi: 10.1136/bjophthalmol-2014-305047.
13. Germline mutation of bap1 accelerates development of asbestos-induced malignant mesothelioma. Xu J, etal., Cancer Res. 2014 Aug 15;74(16):4388-97. doi: 10.1158/0008-5472.CAN-14-1328. Epub 2014 Jun 13.
Additional References at PubMed
PMID:18757409   PMID:19188440   PMID:19815555   PMID:20436459   PMID:24270810   PMID:24703950   PMID:25451922   PMID:26119930  


Genomics

Comparative Map Data
Bap1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8166,453,126 - 6,461,952 (+)NCBIGRCr8
mRatBN7.2166,446,709 - 6,455,535 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl166,446,709 - 6,455,535 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx166,458,869 - 6,467,694 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0167,603,765 - 7,612,590 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0166,466,025 - 6,474,848 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0167,336,685 - 7,345,511 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl167,336,685 - 7,345,511 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0167,265,075 - 7,273,901 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4166,684,470 - 6,693,296 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1166,684,871 - 6,691,564 (+)NCBI
Celera168,733,498 - 8,742,324 (-)NCBICelera
Cytogenetic Map16p16NCBI
BAP1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38352,401,008 - 52,410,008 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl352,401,008 - 52,410,008 (-)EnsemblGRCh38hg38GRCh38
GRCh37352,435,024 - 52,444,024 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36352,410,064 - 52,419,049 (-)NCBINCBI36Build 36hg18NCBI36
Build 34352,410,066 - 52,419,049NCBI
Celera352,414,346 - 52,423,331 (-)NCBICelera
Cytogenetic Map3p21.1NCBI
HuRef352,497,655 - 52,506,755 (-)NCBIHuRef
CHM1_1352,387,546 - 52,396,647 (-)NCBICHM1_1
T2T-CHM13v2.0352,433,990 - 52,442,989 (-)NCBIT2T-CHM13v2.0
Bap1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391430,973,358 - 30,981,887 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1430,973,407 - 30,981,901 (+)EnsemblGRCm39 Ensembl
GRCm381431,251,352 - 31,259,930 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1431,251,450 - 31,259,944 (+)EnsemblGRCm38mm10GRCm38
MGSCv371432,064,675 - 32,073,115 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361430,080,596 - 30,088,939 (+)NCBIMGSCv36mm8
Celera1427,510,099 - 27,518,539 (+)NCBICelera
Cytogenetic Map14BNCBI
cM Map1419.09NCBI
Bap1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554302,390,524 - 2,400,645 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554302,391,970 - 2,400,645 (-)NCBIChiLan1.0ChiLan1.0
BAP1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2252,396,300 - 52,405,519 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1352,401,975 - 52,410,291 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0352,344,067 - 52,352,187 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1353,573,785 - 53,581,943 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl353,573,785 - 53,581,943 (-)Ensemblpanpan1.1panPan2
BAP1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12037,355,499 - 37,364,298 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2037,355,494 - 37,511,125 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2037,337,055 - 37,345,854 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02037,705,626 - 37,714,425 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2037,705,621 - 37,786,632 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12037,069,579 - 37,078,375 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02037,478,238 - 37,487,043 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02037,762,923 - 37,771,723 (+)NCBIUU_Cfam_GSD_1.0
Bap1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118170,100,437 - 170,109,229 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364733,239,010 - 3,247,806 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364733,239,009 - 3,247,806 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
BAP1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1334,544,581 - 34,553,483 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11334,544,570 - 34,553,538 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21337,758,317 - 37,767,182 (-)NCBISscrofa10.2Sscrofa10.2susScr3
BAP1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12213,765,510 - 13,774,866 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2213,764,686 - 13,774,740 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666041153,126,822 - 153,136,184 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Bap1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248224,809,405 - 4,818,515 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248224,809,489 - 4,818,514 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Bap1
22 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:136
Count of miRNA genes:109
Interacting mature miRNAs:115
Transcripts:ENSRNOT00000025853
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1357403Slep4Serum leptin concentration QTL 43.91blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1619639137Rat
1600369Hcas8Hepatocarcinoma susceptibility QTL 8liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)16122477621Rat
631830Alc7Alcohol consumption QTL 72.9consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16126727669Rat
634355Rends4Renal damage susceptibility QTL 40.05kidney blood vessel morphology trait (VT:0000530)organ lesion measurement (CMO:0000677)16126727669Rat
1582235Insul8Insulin level QTL 83.30.0063blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)16126727669Rat
9590151Scort8Serum corticosterone level QTL 88.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)16130836262Rat
2302380Slep6Serum leptin concentration QTL 63.36blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)16132139025Rat
2307172Activ4Activity QTL 43.710.00023locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)16133418960Rat
1354584Despr6Despair related QTL 63.10.0067locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16139533930Rat
2303566Bw90Body weight QTL 902body mass (VT:0001259)body weight (CMO:0000012)16139533930Rat
631561Hcuc2Hepatic copper content QTL 22.8liver copper amount (VT:0003065)liver total copper weight (CMO:0001507)16139533949Rat
6903319Bw114Body weight QTL 1142.70.0037body mass (VT:0001259)body weight (CMO:0000012)16143534949Rat
7411664Foco30Food consumption QTL 30110.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)16144588133Rat
1354625Despr7Despair related QTL 73.160.016locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16144977551Rat
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)1638024580345693Rat
2293343Glom16Glomerulus QTL 167.4kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1683223646053497Rat
2312660Bw95Body weight QTL 950.05inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)1683223659492508Rat
2312663Slep9Serum leptin concentration QTL 90.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1683223659492508Rat
2312666Insul16Insulin level QTL 160.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1683223659492508Rat
2312669Stl23Serum triglyceride level QTL 230.01blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)1683223659492508Rat
2301406Kidm39Kidney mass QTL 390.002kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)16285170915884239Rat
1300133Rf24Renal function QTL 243.64blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)16338015021361552Rat
2306902Bp339Blood pressure QTL 3390.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16338015043025077Rat
737825Alc13Alcohol consumption QTL 134.5consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16422760916039848Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)16422760943025077Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16422760943025077Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)16422760943025077Rat
737819Hcas4Hepatocarcinoma susceptibility QTL 44.43liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)16422760946975965Rat
61405Niddm6Non-insulin dependent diabetes mellitus QTL 63.660.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)16422760948972724Rat
61338Bp23Blood pressure QTL 234.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16422760949227609Rat
737826Alc11Alcohol consumption QTL 113.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16422760960252231Rat
61372Bp40Blood pressure QTL 402.2blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)16422773017696785Rat

Markers in Region
RH131028  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2866,127,306 - 66,127,492 (-)MAPPERmRatBN7.2
mRatBN7.2866,127,306 - 66,127,492 (+)MAPPERmRatBN7.2
mRatBN7.2166,455,221 - 6,455,407 (-)MAPPERmRatBN7.2
mRatBN7.2166,455,221 - 6,455,407 (+)MAPPERmRatBN7.2
Rnor_6.0871,140,995 - 71,141,180NCBIRnor6.0
Rnor_6.0167,345,198 - 7,345,383NCBIRnor6.0
Rnor_5.0167,273,588 - 7,273,773UniSTSRnor5.0
Rnor_5.0870,826,934 - 70,827,119UniSTSRnor5.0
Celera865,520,737 - 65,520,922UniSTS
Celera168,733,626 - 8,733,811UniSTS
Cytogenetic Map16p16UniSTS
RH143362  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2562,230,627 - 62,230,851 (+)MAPPERmRatBN7.2
mRatBN7.2166,446,471 - 6,446,695 (+)MAPPERmRatBN7.2
Rnor_6.0167,336,448 - 7,336,671NCBIRnor6.0
Rnor_6.0563,649,645 - 63,649,868NCBIRnor6.0
Rnor_5.0167,264,838 - 7,265,061UniSTSRnor5.0
Rnor_5.0568,166,750 - 68,166,973UniSTSRnor5.0
RGSC_v3.4166,684,233 - 6,684,456UniSTSRGSC3.4
RGSC_v3.4564,581,480 - 64,581,703UniSTSRGSC3.4
Celera565,364,011 - 65,364,234UniSTS
Celera168,742,338 - 8,742,561UniSTS
Cytogenetic Map16p16UniSTS


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence


RefSeq Acc Id: ENSRNOT00000025853   ⟹   ENSRNOP00000025853
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl166,446,709 - 6,455,535 (+)Ensembl
Rnor_6.0 Ensembl167,336,685 - 7,345,511 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000108732   ⟹   ENSRNOP00000080792
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl166,447,007 - 6,455,474 (+)Ensembl
RefSeq Acc Id: NM_001107292   ⟹   NP_001100762
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8166,453,126 - 6,461,952 (+)NCBI
mRatBN7.2166,446,709 - 6,455,535 (+)NCBI
Rnor_6.0167,336,685 - 7,345,511 (+)NCBI
Rnor_5.0167,265,075 - 7,273,901 (+)NCBI
RGSC_v3.4166,684,470 - 6,693,296 (+)RGD
Celera168,733,498 - 8,742,324 (-)RGD
Sequence:
RefSeq Acc Id: XM_006252606   ⟹   XP_006252668
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8166,453,426 - 6,461,949 (+)NCBI
mRatBN7.2166,446,968 - 6,455,532 (+)NCBI
Rnor_6.0167,336,963 - 7,345,508 (+)NCBI
Rnor_5.0167,265,075 - 7,273,901 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006252607   ⟹   XP_006252669
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8166,453,426 - 6,461,949 (+)NCBI
mRatBN7.2166,446,987 - 6,455,532 (+)NCBI
Rnor_6.0167,336,963 - 7,345,508 (+)NCBI
Rnor_5.0167,265,075 - 7,273,901 (+)NCBI
Sequence:
RefSeq Acc Id: NP_001100762   ⟸   NM_001107292
- UniProtKB: A0A0A0MXZ5 (UniProtKB/TrEMBL),   A0A8I5ZQV2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006252668   ⟸   XM_006252606
- Peptide Label: isoform X1
- UniProtKB: D3ZHS6 (UniProtKB/Swiss-Prot),   A0A8I5ZQV2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006252669   ⟸   XM_006252607
- Peptide Label: isoform X2
- UniProtKB: A0A8I5ZQV2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000025853   ⟸   ENSRNOT00000025853
RefSeq Acc Id: ENSRNOP00000080792   ⟸   ENSRNOT00000108732
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZHS6-F1-model_v2 AlphaFold D3ZHS6 1-727 view protein structure

Transcriptome

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

Promoters
RGD ID:13699929
Promoter ID:EPDNEW_R10452
Type:single initiation site
Name:Bap1_2
Description:Brca1 associated protein 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R10453  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0167,336,605 - 7,336,665EPDNEW
RGD ID:13699930
Promoter ID:EPDNEW_R10453
Type:initiation region
Name:Bap1_1
Description:Brca1 associated protein 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R10452  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0167,336,989 - 7,337,049EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1311938 AgrOrtholog
BioCyc Gene G2FUF-12154 BioCyc
Ensembl Genes ENSRNOG00000019097 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000025853 ENTREZGENE
  ENSRNOT00000025853.6 UniProtKB/TrEMBL
  ENSRNOT00000108732.1 UniProtKB/TrEMBL
Gene3D-CATH 1.20.58.860 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.40.532.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Papain-like_cys_pep_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Peptidase_C12_UCH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Peptidase_C12_UCH_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  UCH_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:306257 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 306257 ENTREZGENE
PANTHER PTHR10589 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  UBIQUITIN CARBOXYL-TERMINAL HYDROLASE BAP1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Peptidase_C12 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  UCH_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Bap1 PhenoGen
PRINTS UBCTHYDRLASE UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000019097 RatGTEx
Superfamily-SCOP SSF54001 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0A0MXZ5 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I5ZQV2 ENTREZGENE, UniProtKB/TrEMBL
  BAP1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-11-25 Bap1  Brca1 associated protein 1  Bap1  BRCA1 associated protein-1 (ubiquitin carboxy-terminal hydrolase)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-25 Bap1  BRCA1 associated protein-1 (ubiquitin carboxy-terminal hydrolase)  Bap1  Brca1 associated protein 1   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Bap1  Brca1 associated protein 1   Bap1_predicted  Brca1 associated protein 1 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Bap1_predicted  Brca1 associated protein 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED