Caps (calcyphosine) - Rat Genome Database

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Gene: Caps (calcyphosine) Rattus norvegicus
Analyze
Symbol: Caps
Name: calcyphosine
RGD ID: 41237504
Description: Predicted to enable calcium ion binding activity. Predicted to act upstream of or within negative regulation of extrinsic apoptotic signaling pathway via death domain receptors. Predicted to be located in cytosol; external side of plasma membrane; and nucleoplasm; INTERACTS WITH (1->4)-beta-D-glucan (ortholog); 1,1,1-trichloroethane (ortholog); 1,2-dichloroethane (ortholog).
Type: protein-coding
RefSeq Status: MODEL
Previously known as: calcyphosin
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr891,630,871 - 1,632,758 (-)NCBIGRCr8
mRatBN7.291,544,597 - 1,545,631 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl91,544,719 - 1,545,647 (-)EnsemblmRatBN7.2 Ensembl
Cytogenetic Map9q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

Genomics

Comparative Map Data
Caps
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr891,630,871 - 1,632,758 (-)NCBIGRCr8
mRatBN7.291,544,597 - 1,545,631 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl91,544,719 - 1,545,647 (-)EnsemblmRatBN7.2 Ensembl
Cytogenetic Map9q11NCBI
CAPS
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38195,914,254 - 5,916,211 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl195,912,339 - 5,916,211 (+)EnsemblGRCh38hg38GRCh38
GRCh37195,914,265 - 5,916,222 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36195,865,219 - 5,866,886 (+)NCBINCBI36Build 36hg18NCBI36
Build 34195,865,218 - 5,866,886NCBI
Celera195,853,155 - 5,855,184 (+)NCBICelera
Cytogenetic Map19p13.3NCBI
HuRef195,673,686 - 5,675,715 (+)NCBIHuRef
CHM1_1195,914,445 - 5,916,474 (+)NCBICHM1_1
T2T-CHM13v2.0195,901,694 - 5,903,651 (+)NCBIT2T-CHM13v2.0
Tnfrsf23
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm397143,219,544 - 143,239,836 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl7143,219,546 - 143,239,609 (-)EnsemblGRCm39 Ensembl
GRCm387143,665,807 - 143,686,436 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl7143,665,809 - 143,685,872 (-)EnsemblGRCm38mm10GRCm38
MGSCv377150,851,712 - 150,871,777 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv367143,475,197 - 143,495,262 (-)NCBIMGSCv36mm8
Celera7143,421,620 - 143,442,135 (-)NCBICelera
Cytogenetic Map7F5NCBI
cM Map788.28NCBI
Caps
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554953,549,455 - 3,550,965 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554953,549,455 - 3,550,965 (-)NCBIChiLan1.0ChiLan1.0
CAPS
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22010,305,725 - 10,316,599 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1199,531,929 - 9,542,799 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0194,925,556 - 4,936,806 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1195,863,665 - 5,865,733 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl195,855,528 - 5,861,485 (+)Ensemblpanpan1.1panPan2
CAPS
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12054,175,986 - 54,177,889 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2054,175,986 - 54,177,889 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2053,919,783 - 53,921,392 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02054,827,470 - 54,829,079 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2054,827,468 - 54,833,760 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12053,893,876 - 53,895,482 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02054,342,752 - 54,344,350 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02054,572,907 - 54,574,519 (-)NCBIUU_Cfam_GSD_1.0
Caps
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118214,437,397 - 214,438,987 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365883,393,024 - 3,398,215 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365883,395,859 - 3,398,215 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CAPS
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl273,123,191 - 73,124,916 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1273,122,784 - 73,124,979 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2273,688,741 - 73,690,473 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CAPS
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.165,529,604 - 5,546,093 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660812,484,185 - 2,507,922 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Caps
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248284,311,790 - 4,314,524 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248284,311,650 - 4,314,781 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Caps
7 total Variants

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10054141Gmadr4Adrenal mass QTL 42.450.0074adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)9114209783Rat
70226Eae4Experimental allergic encephalomyelitis QTL 4nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)9125661317Rat
9589055Scfw5Subcutaneous fat weight QTL 55.550.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)9137999212Rat
7411592Foco8Food consumption QTL 87.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)9137999212Rat
9589158Gluco65Glucose level QTL 656.820.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)9137999212Rat
1300124Cm4Cardiac mass QTL 43.55heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)9140594091Rat
1298088Edpm11Estrogen-dependent pituitary mass QTL 112.5pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)9143718459Rat
1641911Alcrsp13Alcohol response QTL 13response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)9143718459Rat
10054125Srcrt7Stress Responsive Cort QTL 73.330.0011blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)9187073594Rat
1331757Cdexp1CD45RC expression in CD8 T cells QTL 14.3CD8-positive T cell quantity (VT:0008077)blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)9102453767509080Rat
1354650Despr5Despair related QTL 54.010.0017locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)9125408446254084Rat
2303559Gluco54Glucose level QTL 542blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)9125408446254084Rat


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_039084956 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAXUCZ010000009 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000102509   ⟹   ENSRNOP00000079000
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl91,544,719 - 1,545,647 (-)Ensembl
RefSeq Acc Id: XM_039084956   ⟹   XP_038940884
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr891,630,871 - 1,632,758 (-)NCBI
mRatBN7.291,544,597 - 1,545,631 (-)NCBI
Protein Sequences
Protein RefSeqs XP_038940884 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000079000.1
Reference Protein Sequences
RefSeq Acc Id: XP_038940884   ⟸   XM_039084956
RefSeq Acc Id: ENSRNOP00000079000   ⟸   ENSRNOT00000102509
Protein Domains
EF-hand

Transcriptome

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


Additional Information

Database Acc Id Source(s)
BioCyc Gene G2FUF-28518 BioCyc
Ensembl Genes ENSRNOG00000063246 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000102509.1 UniProtKB/TrEMBL
Gene3D-CATH EF-hand UniProtKB/TrEMBL
InterPro EF-hand-dom_pair UniProtKB/TrEMBL
  EF_Hand_1_Ca_BS UniProtKB/TrEMBL
  EF_hand_dom UniProtKB/TrEMBL
NCBI Gene Caps ENTREZGENE
PANTHER CALCYPHOSIN UniProtKB/TrEMBL
  CALCYPHOSIN UniProtKB/TrEMBL
PhenoGen Caps PhenoGen
PROSITE EF_HAND_1 UniProtKB/TrEMBL
  EF_HAND_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000063246 RatGTEx
Superfamily-SCOP SSF47473 UniProtKB/TrEMBL
UniProt A0A8I6G2P3_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-06-02 Caps  calcyphosine  Caps  calcyphosine  Data merged from RGD:149736204 737654 PROVISIONAL
2021-08-09 Caps  calcyphosine      Symbol and Name status set to provisional 45752 PROVISIONAL
2021-01-27 Caps  calcyphosine      Symbol and Name status set to provisional 70820 PROVISIONAL