Ccdc87 (coiled-coil domain containing 87) - Rat Genome Database

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Gene: Ccdc87 (coiled-coil domain containing 87) Mus musculus
Analyze
Symbol: Ccdc87
Name: coiled-coil domain containing 87
RGD ID: 1620399
MGI Page MGI
Description: Involved in positive regulation of acrosome reaction and positive regulation of fertilization. Orthologous to human CCDC87 (coiled-coil domain containing 87).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 4931419P11Rik; coiled-coil domain-containing protein 87
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39194,889,394 - 4,892,556 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl194,889,394 - 4,892,556 (+)EnsemblGRCm39 Ensembl
GRCm38194,839,366 - 4,842,528 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl194,839,366 - 4,842,528 (+)EnsemblGRCm38mm10GRCm38
MGSCv37194,839,366 - 4,842,528 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36194,839,415 - 4,842,163 (+)NCBIMGSCv36mm8
Celera194,710,421 - 4,713,583 (+)NCBICelera
Cytogenetic Map19ANCBI
cM Map194.11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction 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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12477932   PMID:16141072   PMID:16141073   PMID:21267068   PMID:29733332   PMID:32325033   PMID:38355793  


Genomics

Comparative Map Data
Ccdc87
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39194,889,394 - 4,892,556 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl194,889,394 - 4,892,556 (+)EnsemblGRCm39 Ensembl
GRCm38194,839,366 - 4,842,528 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl194,839,366 - 4,842,528 (+)EnsemblGRCm38mm10GRCm38
MGSCv37194,839,366 - 4,842,528 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36194,839,415 - 4,842,163 (+)NCBIMGSCv36mm8
Celera194,710,421 - 4,713,583 (+)NCBICelera
Cytogenetic Map19ANCBI
cM Map194.11NCBI
CCDC87
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381166,590,176 - 66,593,063 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1166,590,176 - 66,593,063 (-)EnsemblGRCh38hg38GRCh38
GRCh371166,357,647 - 66,360,534 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361166,114,216 - 66,117,130 (-)NCBINCBI36Build 36hg18NCBI36
Cytogenetic Map11q13.2NCBI
HuRef1162,685,282 - 62,688,197 (-)NCBIHuRef
CHM1_11166,241,371 - 66,244,285 (-)NCBICHM1_1
T2T-CHM13v2.01166,586,422 - 66,589,309 (-)NCBIT2T-CHM13v2.0
Ccdc87
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81211,564,419 - 211,567,115 (+)NCBIGRCr8
mRatBN7.21202,135,021 - 202,137,717 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1202,134,963 - 202,138,337 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1210,488,160 - 210,490,856 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01217,580,453 - 217,583,149 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01210,271,475 - 210,274,171 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01220,096,478 - 220,099,174 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1220,096,422 - 220,099,611 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01227,027,475 - 227,030,171 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41207,451,155 - 207,453,851 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1199,675,524 - 199,678,217 (+)NCBICelera
Cytogenetic Map1q43NCBI
Ccdc87
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495542218,772,869 - 18,775,548 (+)NCBIChiLan1.0ChiLan1.0
CCDC87
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2967,814,623 - 67,818,231 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11168,857,399 - 68,861,008 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01161,946,954 - 61,949,840 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11165,270,801 - 65,273,720 (-)NCBIpanpan1.1PanPan1.1panPan2
CCDC87
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11850,759,378 - 50,762,205 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1850,759,436 - 50,762,057 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1849,368,112 - 49,370,929 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01851,790,913 - 51,793,730 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1851,790,961 - 51,793,582 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11850,892,297 - 50,895,114 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01850,472,130 - 50,474,948 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01851,261,982 - 51,264,800 (+)NCBIUU_Cfam_GSD_1.0
Ccdc87
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049476,562,699 - 6,565,919 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049365993,005,067 - 3,008,053 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CCDC87
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl25,833,464 - 5,836,686 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.125,833,431 - 5,838,922 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.224,863,943 - 4,867,188 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CCDC87
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.117,686,514 - 7,689,390 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl17,686,575 - 7,689,061 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666038104,970,062 - 104,972,985 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ccdc87
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476719,815,707 - 19,818,268 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462476719,815,664 - 19,818,796 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ccdc87
101 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:141
Count of miRNA genes:135
Interacting mature miRNAs:136
Transcripts:ENSMUST00000088653
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4142302Nstr1_mnerve sheath tumor resistance QTL 1 (mouse)Not determined19122371338Mouse
1301271Datd_mdopamine transporter density (mouse)Not determined19132340234Mouse
1300923Bits4_mbitterness sensitivity 4 (mouse)Not determined19332321637323348Mouse
4142406Pbctlp1_mperipheral blood cytotoxic T lymphocyte percentage 1 (mouse)Not determined132875174Mouse
1300776Lfp3_mlong free running period 3 (mouse)Not determined19120328703Mouse
1300904Chab5_mcholesterol absorption 5 (mouse)Not determined19165376435653927Mouse
26884385Skwq14_mskull length QTL 14, 16 week (mouse)19325000035877400Mouse
1301800Faq10_mfluctuating asymmetry QTL 10 (mouse)Not determined19332321637323348Mouse
1300591Pas3_mpulmonary adenoma susceptibility 3 (mouse)Not determined19332321637323348Mouse
1302126Skull26_mskull morphology 26 (mouse)Not determined19332321637323348Mouse
4142161Drinksac2_mdrink saccharin 2 (mouse)Not determined120695286Mouse
1357819Tgct2_mtesticular germ cell tumor 2 (mouse)Not determined19332855120539663Mouse

Markers in Region
BB287151  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38194,841,980 - 4,842,101UniSTSGRCm38
MGSCv37194,841,980 - 4,842,101UniSTSGRCm37
Celera194,713,035 - 4,713,156UniSTS
Cytogenetic Map19AUniSTS
Whitehead/MRC_RH1959.3UniSTS
PMC16025P1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38194,838,839 - 4,839,235UniSTSGRCm38
MGSCv37194,838,839 - 4,839,235UniSTSGRCm37
Celera194,709,894 - 4,710,290UniSTS
Cytogenetic Map19AUniSTS
cM Map194.0UniSTS


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSMUST00000088653   ⟹   ENSMUSP00000086028
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl194,889,394 - 4,892,556 (+)Ensembl
GRCm38.p6 Ensembl194,839,366 - 4,842,528 (+)Ensembl
RefSeq Acc Id: NM_207268   ⟹   NP_997151
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39194,889,394 - 4,892,556 (+)NCBI
GRCm38194,839,366 - 4,842,528 (+)ENTREZGENE
MGSCv37194,839,366 - 4,842,528 (+)RGD
Celera194,710,421 - 4,713,583 (+)RGD
cM Map19 ENTREZGENE
Sequence:
Protein Sequences
Protein RefSeqs NP_997151 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI45661 (Get FASTA)   NCBI Sequence Viewer  
  BAC26655 (Get FASTA)   NCBI Sequence Viewer  
  EDL33072 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000086028
  ENSMUSP00000086028.3
GenBank Protein Q8CDL9 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_997151   ⟸   NM_207268
- UniProtKB: A6H5W2 (UniProtKB/Swiss-Prot),   Q8CDL9 (UniProtKB/Swiss-Prot)
- Sequence:
Ensembl Acc Id: ENSMUSP00000086028   ⟸   ENSMUST00000088653

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q8CDL9-F1-model_v2 AlphaFold Q8CDL9 1-855 view protein structure

Promoters
RGD ID:6829897
Promoter ID:MM_KWN:26031
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   3T3L1_Day4,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6
Transcripts:NM_016892,   NM_207268
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36194,838,999 - 4,839,499 (-)MPROMDB
RGD ID:13678458
Promoter ID:EPDNEW_M23378
Type:initiation region
Name:Ccdc87_1
Description:Mus musculus coiled-coil domain containing 87 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38194,839,453 - 4,839,513EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:3026882 AgrOrtholog
Ensembl Genes ENSMUSG00000067872 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000088653 ENTREZGENE
  ENSMUST00000088653.3 UniProtKB/Swiss-Prot
Gene3D-CATH 1.20.58.1520 UniProtKB/Swiss-Prot
InterPro CCDC87 UniProtKB/Swiss-Prot
KEGG Report mmu:399599 UniProtKB/Swiss-Prot
MGD MGI:3026882 ENTREZGENE
NCBI Gene 399599 ENTREZGENE
PANTHER COILED-COIL DOMAIN-CONTAINING PROTEIN 87 UniProtKB/Swiss-Prot
  PTHR16078 UniProtKB/Swiss-Prot
Pfam MAP65_ASE1 UniProtKB/Swiss-Prot
PhenoGen Ccdc87 PhenoGen
UniProt A6H5W2 ENTREZGENE
  CCD87_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary A6H5W2 UniProtKB/Swiss-Prot