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CCDC63 coiled-coil domain containing 63 [ Homo sapiens (human) ]

Gene ID: 160762, updated on 27-Nov-2024

Summary

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Official Symbol
CCDC63provided by HGNC
Official Full Name
coiled-coil domain containing 63provided by HGNC
Primary source
HGNC:HGNC:26669
See related
Ensembl:ENSG00000173093 MIM:617969; AllianceGenome:HGNC:26669
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
ODA5
Summary
Predicted to be involved in cilium movement; outer dynein arm assembly; and spermatid development. Predicted to be active in axoneme. [provided by Alliance of Genome Resources, Nov 2024]
Expression
Restricted expression toward testis (RPKM 6.9) See more
Orthologs
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Genomic context

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See CCDC63 in Genome Data Viewer
Location:
12q24.11
Exon count:
16
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (110844486..110907535)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (110822299..110886718)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (111284791..111345339)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene protein phosphatase 1 catalytic subunit gamma Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:111180421-111180929 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:111181691-111182275 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7027 Neighboring gene ReSE screen-validated silencer GRCh37_chr12:111218408-111218569 Neighboring gene CRISPRi-validated cis-regulatory element chr12.3641 Neighboring gene NANOG hESC enhancer GRCh37_chr12:111246997-111247498 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr12:111251419-111251918 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4864 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7028 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr12:111290753-111291952 Neighboring gene ribosomal protein L29 pseudogene 25 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:111298099-111298599 Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:111355215-111355716 Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:111355717-111356216 Neighboring gene VISTA enhancer hs2149 Neighboring gene VISTA enhancer hs2493 Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:111373669-111374362 Neighboring gene Sharpr-MPRA regulatory region 3484 Neighboring gene myosin light chain 2 Neighboring gene long intergenic non-protein coding RNA 1405

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Histone Methylation Regulates Gene Expression in the Round Spermatids to Set the RNA Payloads of Sperm. Sarkar S, et al. Reprod Sci, 2022 Mar. PMID 35015293
  2. Confirmation of ALDH2 as a Major locus of drinking behavior and of its variants regulating multiple metabolic phenotypes in a Japanese population. Takeuchi F, et al. Circ J, 2011. PMID 21372407
  3. Common variants at 12q24 are associated with drinking behavior in Han Chinese. Yang X, et al. Am J Clin Nutr, 2013 Mar. PMID 23364009
  4. CRISPR/Cas9-Mediated Rapid Generation of Multiple Mouse Lines Identified Ccdc63 as Essential for Spermiogenesis. Young SA, et al. Int J Mol Sci, 2015 Oct 16. PMID 26501274, Free PMC Article
  5. Genome-wide association studies identify genetic loci related to alcohol consumption in Korean men. Baik I, et al. Am J Clin Nutr, 2011 Apr. PMID 21270382

See all (10) citations in PubMed

GeneRIFs: Gene References Into Functions

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Common variants at 12q24 are associated with drinking behavior in Han Chinese.
EBI GWAS Catalog
Confirmation of ALDH2 as a Major locus of drinking behavior and of its variants regulating multiple metabolic phenotypes in a Japanese population.
EBI GWAS Catalog
Genome-wide association studies identify genetic loci related to alcohol consumption in Korean men.
EBI GWAS Catalog

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Homology

Clone Names

  • FLJ35843

Gene Ontology Provided by GOA

Process Evidence Code Pubs
involved_in cilium movement IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in outer dynein arm assembly IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in spermatid development ISS
Inferred from Sequence or Structural Similarity
more info
  
Component Evidence Code Pubs
is_active_in axoneme IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
coiled-coil domain-containing protein 63
Names
outer row dynein assembly 5 homolog

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001286243.2 → NP_001273172.1  coiled-coil domain-containing protein 63 isoform 2

    See identical proteins and their annotated locations for NP_001273172.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (2) has a shorter N-terminus than isoform 1.
    Source sequence(s)
    AK302207, BC064580, DB036197
    Consensus CDS
    CCDS66470.1
    UniProtKB/Swiss-Prot
    Q8NA47
    Related
    ENSP00000445881.1, ENST00000545036.5
    Conserved Domains (1) summary
    COG1196
    Location:13 → 381
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

  2. NM_001286244.2 → NP_001273173.1  coiled-coil domain-containing protein 63 isoform 3

    See identical proteins and their annotated locations for NP_001273173.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (3) has a shorter N-terminus than isoform 1.
    Source sequence(s)
    AK302207, BC064580, DB036197
    Consensus CDS
    CCDS73528.1
    UniProtKB/TrEMBL
    G3V217
    Related
    ENSP00000450217.1, ENST00000552694.1
    Conserved Domains (1) summary
    pfam16046
    Location:22 → 106
    FAM76; FAM76 protein

  3. NM_152591.3 → NP_689804.1  coiled-coil domain-containing protein 63 isoform 1

    See identical proteins and their annotated locations for NP_689804.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AK093162, AK302207, BC064580, DB036197
    Consensus CDS
    CCDS9151.1
    UniProtKB/Swiss-Prot
    B4DY03, Q0P603, Q6P2E1, Q8NA47
    Related
    ENSP00000312399.5, ENST00000308208.10
    Conserved Domains (1) summary
    COG1196
    Location:53 → 296
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000012.12 Reference GRCh38.p14 Primary Assembly

    Range
    110844486..110907535
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011538001.3 → XP_011536303.1  coiled-coil domain-containing protein 63 isoform X1

    See identical proteins and their annotated locations for XP_011536303.1

    UniProtKB/Swiss-Prot
    B4DY03, Q0P603, Q6P2E1, Q8NA47
    Conserved Domains (1) summary
    COG1196
    Location:53 → 296
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

  2. XM_011537999.2 → XP_011536301.1  coiled-coil domain-containing protein 63 isoform X1

    See identical proteins and their annotated locations for XP_011536301.1

    UniProtKB/Swiss-Prot
    B4DY03, Q0P603, Q6P2E1, Q8NA47
    Conserved Domains (1) summary
    COG1196
    Location:53 → 296
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

  3. XM_047428443.1 → XP_047284399.1  coiled-coil domain-containing protein 63 isoform X1

    UniProtKB/Swiss-Prot
    B4DY03, Q0P603, Q6P2E1, Q8NA47

  4. XM_006719263.3 → XP_006719326.1  coiled-coil domain-containing protein 63 isoform X2

    Conserved Domains (1) summary
    cl19219
    Location:61 → 139
    DUF342; Protein of unknown function (DUF342)

  5. XM_047428442.1 → XP_047284398.1  coiled-coil domain-containing protein 63 isoform X1

    UniProtKB/Swiss-Prot
    B4DY03, Q0P603, Q6P2E1, Q8NA47

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060936.1 Alternate T2T-CHM13v2.0

    Range
    110822299..110886718
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054371298.1 → XP_054227273.1  coiled-coil domain-containing protein 63 isoform X1

    UniProtKB/Swiss-Prot
    B4DY03, Q0P603, Q6P2E1, Q8NA47

  2. XM_054371296.1 → XP_054227271.1  coiled-coil domain-containing protein 63 isoform X1

    UniProtKB/Swiss-Prot
    B4DY03, Q0P603, Q6P2E1, Q8NA47

  3. XM_054371297.1 → XP_054227272.1  coiled-coil domain-containing protein 63 isoform X1

    UniProtKB/Swiss-Prot
    B4DY03, Q0P603, Q6P2E1, Q8NA47

  4. XM_054371299.1 → XP_054227274.1  coiled-coil domain-containing protein 63 isoform X2

  5. XM_054371295.1 → XP_054227270.1  coiled-coil domain-containing protein 63 isoform X1

    UniProtKB/Swiss-Prot
    B4DY03, Q0P603, Q6P2E1, Q8NA47
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8NA47.1 GenPept UniProtKB/Swiss-Prot:Q8NA47

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