Cabyr (calcium binding tyrosine phosphorylation regulated) - Rat Genome Database

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Gene: Cabyr (calcium binding tyrosine phosphorylation regulated) Rattus norvegicus
Analyze
Symbol: Cabyr
Name: calcium binding tyrosine phosphorylation regulated
RGD ID: 1585413
Description: Predicted to enable calcium ion binding activity; enzyme binding activity; and protein domain specific binding activity. Predicted to be involved in sperm capacitation. Predicted to be located in cytosol; nucleoplasm; and sperm flagellum. Predicted to be active in cytoplasm and sperm fibrous sheath. Orthologous to human CABYR (calcium binding tyrosine phosphorylation regulated); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: calcium binding tyrosine-(Y)-phosphorylation regulated; calcium-binding tyrosine-phosphorylation regulated protein; LOC686189; similar to calcium-binding tyrosine-phosphorylation regulated protein isoform 2
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
mRatBN7.2183,892,062 - 3,904,391 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl183,892,132 - 3,903,840 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx184,115,194 - 4,124,531 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0184,902,753 - 4,912,090 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0184,161,848 - 4,171,159 (+)NCBIRnor_WKY
Rnor_6.0184,082,175 - 4,096,650 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl184,084,228 - 4,095,936 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0184,076,885 - 4,088,625 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera183,947,544 - 3,959,262 (+)NCBICelera
Cytogenetic Map18p13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

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
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:11820818   PMID:12477932   PMID:12801634   PMID:15632090   PMID:17855365   PMID:18421703   PMID:20731842   PMID:21274509   PMID:21630459  


Genomics

Comparative Map Data
Cabyr
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2183,892,062 - 3,904,391 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl183,892,132 - 3,903,840 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx184,115,194 - 4,124,531 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0184,902,753 - 4,912,090 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0184,161,848 - 4,171,159 (+)NCBIRnor_WKY
Rnor_6.0184,082,175 - 4,096,650 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl184,084,228 - 4,095,936 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0184,076,885 - 4,088,625 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera183,947,544 - 3,959,262 (+)NCBICelera
Cytogenetic Map18p13NCBI
CABYR
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381824,139,062 - 24,161,600 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1824,138,987 - 24,161,600 (+)EnsemblGRCh38hg38GRCh38
GRCh371821,719,026 - 21,741,564 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361819,972,953 - 19,995,562 (+)NCBINCBI36Build 36hg18NCBI36
Build 341819,972,952 - 19,995,562NCBI
Celera1818,535,262 - 18,557,874 (+)NCBICelera
Cytogenetic Map18q11.2NCBI
HuRef1818,574,968 - 18,597,620 (+)NCBIHuRef
CHM1_11821,646,183 - 21,668,832 (+)NCBICHM1_1
T2T-CHM13v2.01824,333,389 - 24,355,939 (+)NCBIT2T-CHM13v2.0
Cabyr
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391812,874,141 - 12,888,203 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1812,873,379 - 12,888,317 (+)EnsemblGRCm39 Ensembl
GRCm381812,740,825 - 12,755,146 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1812,740,322 - 12,755,260 (+)EnsemblGRCm38mm10GRCm38
MGSCv371812,899,864 - 12,913,651 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361812,884,524 - 12,898,311 (+)NCBIMGSCv36mm8
Celera1812,973,145 - 12,986,930 (+)NCBICelera
Cytogenetic Map18A1NCBI
Cabyr
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540212,508,538 - 12,529,230 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540212,508,524 - 12,529,230 (+)NCBIChiLan1.0ChiLan1.0
CABYR
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11821,014,584 - 21,037,082 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1821,014,584 - 21,037,082 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01817,391,217 - 17,414,683 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
CABYR
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1764,223,591 - 64,239,362 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl764,223,579 - 64,239,277 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha763,672,523 - 63,685,535 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0764,282,146 - 64,297,921 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl764,282,146 - 64,297,849 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1763,951,924 - 63,964,930 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0763,967,190 - 63,980,199 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0764,271,739 - 64,284,749 (-)NCBIUU_Cfam_GSD_1.0
Cabyr
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494460,270,142 - 60,298,230 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365503,520,717 - 3,547,712 (+)EnsemblSpeTri2.0
SpeTri2.0NW_0049365503,519,470 - 3,545,938 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CABYR
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6108,969,948 - 108,997,297 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.16108,971,340 - 108,997,295 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.26101,637,498 - 101,663,520 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CABYR
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11856,371,478 - 56,395,160 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1856,371,342 - 56,394,466 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605031,121,123 - 31,141,932 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cabyr
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247708,055,008 - 8,079,925 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Cabyr
37 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:381
Count of miRNA genes:205
Interacting mature miRNAs:230
Transcripts:ENSRNOT00000071392
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
8552968Pigfal19Plasma insulin-like growth factor 1 level QTL 1911.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)18125758124Rat
9590248Scort10Serum corticosterone level QTL 1019.710.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)18125758124Rat
2312598Bp340Blood pressure QTL 3400.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)18130558703Rat
2300180Bmd67Bone mineral density QTL 674.80.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)18134291613Rat
2293661Bss50Bone structure and strength QTL 504.640.0003lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)18134291613Rat
61388Bp2Blood pressure QTL 23.23arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)18135374722Rat
9589153Insul31Insulin level QTL 317.150.05blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)18142547119Rat
1641910Colcr3Colorectal carcinoma resistance QTL 35.020.000007intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor surface area measurement (CMO:0002078)18224947722066430Rat
1641910Colcr3Colorectal carcinoma resistance QTL 35.020.000007intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor number (CMO:0002076)18224947722066430Rat

Markers in Region
BE112861  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2183,894,938 - 3,895,092 (+)MAPPERmRatBN7.2
Rnor_6.0184,087,035 - 4,087,188NCBIRnor6.0
Rnor_5.0184,079,722 - 4,079,875UniSTSRnor5.0
Celera183,950,361 - 3,950,514UniSTS
RH 3.4 Map1885.11UniSTS
RH139707  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2183,904,093 - 3,904,281 (+)MAPPERmRatBN7.2
Rnor_6.0184,096,190 - 4,096,377NCBIRnor6.0
Rnor_5.0184,088,877 - 4,089,064UniSTSRnor5.0
Celera183,959,526 - 3,959,713UniSTS
RH 3.4 Map1841.3UniSTS


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 6 6 7
Low 3 11 22 12 13 12 8 10 52 13 28 11 8
Below cutoff 28 23 23 23 1 22 20 6

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000071392   ⟹   ENSRNOP00000065843
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl183,892,132 - 3,903,840 (+)Ensembl
Rnor_6.0 Ensembl184,084,228 - 4,095,936 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000094472   ⟹   ENSRNOP00000079211
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl183,892,132 - 3,903,778 (+)Ensembl
RefSeq Acc Id: NM_001143893   ⟹   NP_001137365
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2183,892,132 - 3,903,840 (+)NCBI
Rnor_6.0184,084,228 - 4,095,936 (+)NCBI
Rnor_5.0184,076,885 - 4,088,625 (+)NCBI
Celera183,947,544 - 3,959,262 (+)RGD
Sequence:
RefSeq Acc Id: XM_006254426   ⟹   XP_006254488
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2183,892,062 - 3,904,391 (+)NCBI
Rnor_6.0184,082,175 - 4,096,650 (+)NCBI
Rnor_5.0184,076,885 - 4,088,625 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017601043   ⟹   XP_017456532
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2183,892,062 - 3,901,542 (+)NCBI
Rnor_6.0184,082,175 - 4,093,638 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039097129   ⟹   XP_038953057
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2183,892,062 - 3,904,391 (+)NCBI
RefSeq Acc Id: XR_001842032
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2183,892,062 - 3,903,844 (+)NCBI
Rnor_6.0184,082,175 - 4,096,650 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_001137365   ⟸   NM_001143893
- UniProtKB: M0R8P3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006254488   ⟸   XM_006254426
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017456532   ⟸   XM_017601043
- Peptide Label: isoform X1
- UniProtKB: M0R8P3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000065843   ⟸   ENSRNOT00000071392
RefSeq Acc Id: XP_038953057   ⟸   XM_039097129
- Peptide Label: isoform X3
- UniProtKB: A0A8I5ZMY5 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000079211   ⟸   ENSRNOT00000094472
Protein Domains
RIIa

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0R8P3-F1-model_v2 AlphaFold M0R8P3 1-400 view protein structure

Transcriptome

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

Promoters
RGD ID:13700641
Promoter ID:EPDNEW_R11164
Type:multiple initiation site
Name:Cabyr_1
Description:calcium binding tyrosine phosphorylation regulated
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_6.0184,084,226 - 4,084,286EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1585413 AgrOrtholog
BioCyc Gene G2FUF-8353 BioCyc
Ensembl Genes ENSRNOG00000047436 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000065843 ENTREZGENE
  ENSRNOP00000065843.1 UniProtKB/TrEMBL
  ENSRNOP00000079211 ENTREZGENE
  ENSRNOP00000079211.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000071392 ENTREZGENE
  ENSRNOT00000071392.2 UniProtKB/TrEMBL
  ENSRNOT00000094472 ENTREZGENE
  ENSRNOT00000094472.1 UniProtKB/TrEMBL
InterPro CABYR UniProtKB/TrEMBL
  cAMP_dep_PK_reg_su_I/II_a/b UniProtKB/TrEMBL
KEGG Report rno:686189 UniProtKB/TrEMBL
NCBI Gene 686189 ENTREZGENE
PANTHER PTHR15494 UniProtKB/TrEMBL
Pfam RIIa UniProtKB/TrEMBL
PhenoGen Cabyr PhenoGen
SMART RIIa UniProtKB/TrEMBL
UniProt A0A8I5ZMY5 ENTREZGENE, UniProtKB/TrEMBL
  M0R8P3 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-17 Cabyr  calcium binding tyrosine phosphorylation regulated  Cabyr  calcium binding tyrosine-(Y)-phosphorylation regulated  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-12-08 Cabyr  calcium binding tyrosine-(Y)-phosphorylation regulated  LOC686189  similar to calcium-binding tyrosine-phosphorylation regulated protein isoform 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-19 LOC686189  similar to calcium-binding tyrosine-phosphorylation regulated protein isoform 2      Symbol and Name status set to provisional 70820 PROVISIONAL