Ccdc88b (coiled-coil domain containing 88B) - Rat Genome Database

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Gene: Ccdc88b (coiled-coil domain containing 88B) Chinchilla lanigera
Analyze
Symbol: Ccdc88b
Name: coiled-coil domain containing 88B
RGD ID: 8899082
Description: INVOLVED IN defense response to protozoan (ortholog); positive regulation of cytokine production (ortholog); positive regulation of T cell activation (ortholog); ASSOCIATED WITH genetic disease (ortholog); high grade glioma (ortholog); intellectual disability (ortholog); FOUND IN centrosome (ortholog); cytosol (ortholog); membrane (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: coiled-coil domain-containing protein 88B
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542220,738,645 - 20,750,945 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542220,738,202 - 20,751,016 (-)NCBIChiLan1.0ChiLan1.0
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

Cellular Component
centrosome  (ISO)
cytosol  (ISO)
membrane  (ISO)
nucleoplasm  (ISO)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Ccdc88b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542220,738,645 - 20,750,945 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542220,738,202 - 20,751,016 (-)NCBIChiLan1.0ChiLan1.0
CCDC88B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381164,340,204 - 64,357,534 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1164,340,204 - 64,357,534 (+)EnsemblGRCh38hg38GRCh38
GRCh371164,107,676 - 64,125,006 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361163,864,271 - 63,881,582 (+)NCBINCBI36Build 36hg18NCBI36
Celera1161,433,773 - 61,451,010 (+)NCBICelera
Cytogenetic Map11q13.1NCBI
HuRef1160,435,387 - 60,452,709 (+)NCBIHuRef
CHM1_11163,990,713 - 64,008,023 (+)NCBICHM1_1
T2T-CHM13v2.01164,330,213 - 64,347,539 (+)NCBIT2T-CHM13v2.0
Ccdc88b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39196,821,991 - 6,835,586 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl196,821,991 - 6,835,579 (-)EnsemblGRCm39 Ensembl
GRCm38196,844,623 - 6,858,222 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl196,844,623 - 6,858,211 (-)EnsemblGRCm38mm10GRCm38
MGSCv37196,919,113 - 6,932,701 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36196,911,667 - 6,925,255 (-)NCBIMGSCv36mm8
Celera196,621,185 - 6,634,250 (-)NCBICelera
Cytogenetic Map19ANCBI
cM Map195.08NCBI
Ccdc88b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81213,466,139 - 213,482,099 (-)NCBIGRCr8
mRatBN7.21204,036,913 - 204,052,878 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1204,036,918 - 204,052,970 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.01222,102,436 - 222,118,485 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1222,102,437 - 222,118,459 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01229,093,019 - 229,108,951 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41209,520,224 - 209,536,201 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11209,678,880 - 209,708,626 (-)NCBI
Celera1201,571,162 - 201,587,460 (-)NCBICelera
Cytogenetic Map1q43NCBI
CCDC88B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2965,567,056 - 65,584,707 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11166,612,195 - 66,629,837 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01159,696,276 - 59,714,086 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11163,042,107 - 63,058,480 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1163,042,147 - 63,058,434 (+)Ensemblpanpan1.1panPan2
CCDC88B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11852,722,197 - 52,737,023 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1852,708,838 - 52,736,728 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1851,329,341 - 51,343,974 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01853,767,474 - 53,782,106 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1853,754,109 - 53,782,050 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11852,859,541 - 52,874,172 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01852,446,108 - 52,460,739 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01853,229,912 - 53,244,546 (-)NCBIUU_Cfam_GSD_1.0
Ccdc88b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049478,425,644 - 8,441,539 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365994,867,955 - 4,879,929 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365994,867,993 - 4,881,662 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CCDC88B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.127,767,924 - 7,784,625 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.226,992,400 - 7,010,214 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LOC103233216
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.119,875,909 - 9,892,893 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl19,874,560 - 9,891,481 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023667676110 - 12,390 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ccdc88b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462476721,973,147 - 21,987,317 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSCLAT00000024793   ⟹   ENSCLAP00000024556
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495542220,738,645 - 20,750,945 (-)Ensembl
RefSeq Acc Id: XM_013514221   ⟹   XP_013369675
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495542220,738,202 - 20,751,014 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013514222   ⟹   XP_013369676
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495542220,738,202 - 20,751,014 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013514223   ⟹   XP_013369677
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495542220,738,553 - 20,751,014 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013514224   ⟹   XP_013369678
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495542220,739,859 - 20,751,016 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_013369675 (Get FASTA)   NCBI Sequence Viewer  
  XP_013369676 (Get FASTA)   NCBI Sequence Viewer  
  XP_013369677 (Get FASTA)   NCBI Sequence Viewer  
  XP_013369678 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCLAP00000024556
  ENSCLAP00000024556.1
Reference Protein Sequences
RefSeq Acc Id: XP_013369676   ⟸   XM_013514222
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_013369675   ⟸   XM_013514221
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_013369677   ⟸   XM_013514223
- Peptide Label: isoform X3
- UniProtKB: A0A8C2W3A5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013369678   ⟸   XM_013514224
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: ENSCLAP00000024556   ⟸   ENSCLAT00000024793
Protein Domains
HOOK N-terminal


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000016866 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000024793 ENTREZGENE
  ENSCLAT00000024793.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.418.10 UniProtKB/TrEMBL
InterPro CH_dom_sf UniProtKB/TrEMBL
  HOOK_N UniProtKB/TrEMBL
NCBI Gene Ccdc88b ENTREZGENE
PANTHER COILED-COIL DOMAIN-CONTAINING PROTEIN 88B UniProtKB/TrEMBL
  HOOK PROTEINS UniProtKB/TrEMBL
Pfam HOOK_N UniProtKB/TrEMBL
Superfamily-SCOP Hook domain UniProtKB/TrEMBL
UniProt A0A8C2W3A5 ENTREZGENE, UniProtKB/TrEMBL