Calcoco2 (calcium binding and coiled-coil domain 2) - Rat Genome Database

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Gene: Calcoco2 (calcium binding and coiled-coil domain 2) Heterocephalus glaber
Analyze
Symbol: Calcoco2
Name: calcium binding and coiled-coil domain 2
RGD ID: 18923784
Description: ENCODES a protein that exhibits protein homodimerization activity (ortholog); INVOLVED IN response to type II interferon (ortholog); ASSOCIATED WITH Colorectal Neoplasms (ortholog); trichodontoosseous syndrome (ortholog); FOUND IN cytoplasm (ortholog); cytosol (ortholog); intracellular membrane-bounded organelle (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: calcium-binding and coiled-coil domain-containing protein 2
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: HetGla 1.0 - Naked Mole-Rat female 1.0 Assembly
Position:
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247955,265,141 - 5,283,719 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247955,259,976 - 5,281,958 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
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
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
Calcoco2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247955,265,141 - 5,283,719 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247955,259,976 - 5,281,958 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
CALCOCO2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381748,831,035 - 48,865,245 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1748,831,018 - 48,866,522 (+)EnsemblGRCh38hg38GRCh38
GRCh371746,908,397 - 46,942,607 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361744,263,371 - 44,297,228 (+)NCBINCBI36Build 36hg18NCBI36
Celera1743,362,488 - 43,396,512 (+)NCBICelera
Cytogenetic Map17q21.32NCBI
HuRef1742,276,617 - 42,310,907 (+)NCBIHuRef
CHM1_11746,974,341 - 47,008,496 (+)NCBICHM1_1
T2T-CHM13v2.01749,694,621 - 49,728,978 (+)NCBIT2T-CHM13v2.0
Calcoco2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391195,990,195 - 96,015,362 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1195,990,152 - 96,002,790 (-)EnsemblGRCm39 Ensembl
GRCm381196,098,916 - 96,124,560 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1196,099,326 - 96,111,964 (-)EnsemblGRCm38mm10GRCm38
MGSCv371195,960,640 - 95,973,276 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361195,915,005 - 95,928,054 (-)NCBIMGSCv36mm8
Celera11105,750,331 - 105,762,857 (-)NCBICelera
Cytogenetic Map11DNCBI
cM Map1159.4NCBI
Calcoco2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81081,552,084 - 81,568,266 (-)NCBIGRCr8
mRatBN7.21081,055,467 - 81,069,298 (-)NCBImRatBN7.2mRatBN7.2
Rnor_6.01083,935,087 - 83,963,750 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01083,731,658 - 83,757,102 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41084,820,832 - 84,847,065 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1079,823,176 - 79,838,506 (-)NCBICelera
Cytogenetic Map10q26NCBI
Calcoco2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545112,443,796 - 12,469,857 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495545112,443,262 - 12,469,608 (-)NCBIChiLan1.0ChiLan1.0
CALCOCO2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21916,237,637 - 16,271,874 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11718,203,227 - 18,237,474 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0178,671,682 - 8,705,625 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1178,858,056 - 8,891,297 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl178,858,872 - 8,891,276 (-)Ensemblpanpan1.1panPan2
CALCOCO2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1925,050,603 - 25,078,147 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl925,050,690 - 25,077,557 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha924,514,436 - 24,541,796 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0925,845,530 - 25,873,110 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl925,845,631 - 25,873,692 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1924,613,433 - 24,640,979 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0924,873,840 - 24,901,366 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0925,002,881 - 25,030,259 (+)NCBIUU_Cfam_GSD_1.0
Calcoco2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560224,465,867 - 24,499,885 (+)NCBIHiC_Itri_2
SpeTri2.0NW_00493649012,576,752 - 12,609,273 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CALCOCO2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1225,050,081 - 25,088,895 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11225,050,008 - 25,080,230 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21225,005,409 - 25,036,175 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CALCOCO2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11669,242,720 - 69,274,364 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1669,251,963 - 69,273,384 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366607740,342,413 - 40,375,248 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSHGLT00000017111   ⟹   ENSHGLP00000016940
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_0046247955,265,141 - 5,283,719 (+)Ensembl
RefSeq Acc Id: XM_013077734   ⟹   XP_012933188
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046247955,260,496 - 5,281,958 (+)NCBI
RefSeq Acc Id: XM_013077735   ⟹   XP_012933189
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046247955,260,499 - 5,281,958 (+)NCBI
RefSeq Acc Id: XM_013077736   ⟹   XP_012933190
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046247955,259,976 - 5,281,958 (+)NCBI
RefSeq Acc Id: XM_021239928   ⟹   XP_021095587
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046247955,264,032 - 5,281,958 (+)NCBI
Protein Sequences
Protein RefSeqs XP_012933188 (Get FASTA)   NCBI Sequence Viewer  
  XP_012933189 (Get FASTA)   NCBI Sequence Viewer  
  XP_012933190 (Get FASTA)   NCBI Sequence Viewer  
  XP_021095587 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSHGLP00000016940
GenBank Protein JAO00252 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: XP_012933190   ⟸   XM_013077736
- Peptide Label: isoform X3
- UniProtKB: A0A0P6JW44 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_012933188   ⟸   XM_013077734
- Peptide Label: isoform X1
- UniProtKB: A0A0P6JW44 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_012933189   ⟸   XM_013077735
- Peptide Label: isoform X2
- UniProtKB: A0A0P6JW44 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021095587   ⟸   XM_021239928
- Peptide Label: isoform X3
- UniProtKB: A0A0P6JW44 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSHGLP00000016940   ⟸   ENSHGLT00000017111


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000012114 Ensembl, ENTREZGENE
Ensembl Transcript ENSHGLT00000017111 ENTREZGENE
Gene3D-CATH 2.60.40.2840 UniProtKB/TrEMBL
  6.20.250.40 UniProtKB/TrEMBL
InterPro CALCOCO1/2_Zn_UBZ1 UniProtKB/TrEMBL
  SKICH UniProtKB/TrEMBL
NCBI Gene Calcoco2 ENTREZGENE
PANTHER CALCIUM-BINDING AND COILED-COIL DOMAIN-CONTAINING PROTEIN 2 UniProtKB/TrEMBL
  SKICH DOMAIN-CONTAINING PROTEIN UniProtKB/TrEMBL
Pfam SKICH UniProtKB/TrEMBL
PROSITE ZF_UBZ1 UniProtKB/TrEMBL
UniProt A0A0P6JW44 ENTREZGENE, UniProtKB/TrEMBL