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CCDC120 coiled-coil domain containing 120 [ Homo sapiens (human) ]

Gene ID: 90060, updated on 7-Apr-2024

Summary

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Official Symbol
CCDC120provided by HGNC
Official Full Name
coiled-coil domain containing 120provided by HGNC
Primary source
HGNC:HGNC:28910
See related
Ensembl:ENSG00000147144 MIM:300947; AllianceGenome:HGNC:28910
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
JM11
Summary
This gene encodes a protein that contains a coiled-coil domain. Several alternatively spliced transcript variants encoding multiple isoforms have been found for this gene. [provided by RefSeq, Nov 2012]
Expression
Ubiquitous expression in skin (RPKM 6.3), esophagus (RPKM 4.8) and 24 other tissues See more
Orthologs
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Genomic context

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Location:
Xp11.23
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) X NC_000023.11 (49053572..49069858)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) X NC_060947.1 (48465178..48481578)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (48911101..48927510)

Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene GRIP1 associated protein 1 Neighboring gene ReSE screen-validated silencer GRCh37_chrX:48840212-48840468 Neighboring gene Sharpr-MPRA regulatory region 9113 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29627 Neighboring gene CRISPRi-FlowFISH-validated HDAC6 regulatory element 4 Neighboring gene Sharpr-MPRA regulatory region 2669 Neighboring gene H3K27ac hESC enhancer GRCh37_chrX:48900209-48901072 Neighboring gene transcription factor binding to IGHM enhancer 3 Neighboring gene CRISPRi-FlowFISH-validated PQBP1 regulatory element 4 Neighboring gene Sharpr-MPRA regulatory region 13918 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20833 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20834 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chrX:48934848-48936047 Neighboring gene Sharpr-MPRA regulatory region 1999 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20835 Neighboring gene PRA1 domain family member 2 Neighboring gene WD repeat domain 45 Neighboring gene RNA, U4 small nuclear 52, pseudogene

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. Arf6 guanine nucleotide exchange factor cytohesin-2 binds to CCDC120 and is transported along neurites to mediate neurite growth. Torii T, et al. J Biol Chem, 2014 Dec 5. PMID 25326380, Free PMC Article
  2. Hierarchical assembly of centriole subdistal appendages via centrosome binding proteins CCDC120 and CCDC68. Huang N, et al. Nat Commun, 2017 Apr 19. PMID 28422092, Free PMC Article
  3. A systematic, large-scale resequencing screen of X-chromosome coding exons in mental retardation. Tarpey PS, et al. Nat Genet, 2009 May. PMID 19377476, Free PMC Article
  4. Systematic screening reveals a role for BRCA1 in the response to transcription-associated DNA damage. Hill SJ, et al. Genes Dev, 2014 Sep 1. PMID 25184681, Free PMC Article
  5. Shifted Transversal Design smart-pooling for high coverage interactome mapping. Xin X, et al. Genome Res, 2009 Jul. PMID 19447967, Free PMC Article

See all (30) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. centrosome-binding proteins, coiled-coil domain containing (CCDC) 120 and CCDC68 are two novel subdistal appendages (SDA) components required for hierarchical SDA assembly in human cells.
    Title: Hierarchical assembly of centriole subdistal appendages via centrosome binding proteins CCDC120 and CCDC68.
  2. Arf6 guanine nucleotide exchange factor cytohesin-2 binds to CCDC120 and is transported along neurites to mediate neurite growth.
    Title: Arf6 guanine nucleotide exchange factor cytohesin-2 binds to CCDC120 and is transported along neurites to mediate neurite growth.
Submit: New GeneRIF Correction

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

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in microtubule anchoring at centrosome IGI
Inferred from Genetic Interaction
more info
 PubMed 
involved_in microtubule anchoring at centrosome IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in protein localization IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
part_of centriolar subdistal appendage IDA
Inferred from Direct Assay
more info
 PubMed 
located_in centriole IDA
Inferred from Direct Assay
more info
 PubMed 
located_in endosome IEA
Inferred from Electronic Annotation
more info
  
located_in growth cone IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
coiled-coil domain-containing protein 120

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.

Genomic

  1. NG_016255.2 RefSeqGene

    Range
    10537..21550
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001163321.4 → NP_001156793.2  coiled-coil domain-containing protein 120 isoform 1

    See identical proteins and their annotated locations for NP_001156793.2

    Status: REVIEWED

    Source sequence(s)
    AC231657
    Consensus CDS
    CCDS55414.2
    UniProtKB/Swiss-Prot
    Q96HB5
    Related
    ENSP00000474071.1, ENST00000603986.6
    Conserved Domains (1) summary
    pfam11819
    Location:43 → 176
    DUF3338; Domain of unknown function (DUF3338)

  2. NM_001163322.2 → NP_001156794.1  coiled-coil domain-containing protein 120 isoform 2

    See identical proteins and their annotated locations for NP_001156794.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and coding sequence and lacks an alternate in-frame segment compared to variant 1. The resulting isoform (2) is shorter at the N-terminus and missing a 12 aa internal segment compared to isoform 1.
    Source sequence(s)
    AK293898, BC008769, DA102343
    UniProtKB/Swiss-Prot
    Q96HB5
    Related
    ENSP00000474713.2, ENST00000603906.2
    Conserved Domains (1) summary
    pfam11819
    Location:6 → 129
    DUF3338; Domain of unknown function (DUF3338)

  3. NM_001163323.3 → NP_001156795.1  coiled-coil domain-containing protein 120 isoform 4

    See identical proteins and their annotated locations for NP_001156795.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR and coding sequence, lacks an alternate in-frame segment, and differs in the 3' UTR and coding sequence compared to variant 1. The resulting isoform (4) is shorter at the N-terminus, missing a 12 aa internal segment, and has a shorter and distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AK300366, BC008769, DA102343
    Consensus CDS
    CCDS55413.1
    UniProtKB/Swiss-Prot
    Q96HB5
    Related
    ENSP00000443351.1, ENST00000536628.3
    Conserved Domains (1) summary
    pfam11819
    Location:6 → 129
    DUF3338; Domain of unknown function (DUF3338)

  4. NM_001271835.1 → NP_001258764.1  coiled-coil domain-containing protein 120 isoform 3

    See identical proteins and their annotated locations for NP_001258764.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR and coding sequence and differs in the 3' UTR and coding sequence compared to variant 1. The resulting isoform (3) is shorter at the N-terminus and has a shorter and distinct C-terminus compared to isoform 1. Variants 3, 5, and 6 all encode the same isoform (3).
    Source sequence(s)
    AK315837, BC008769, DA102343
    Consensus CDS
    CCDS14316.1
    UniProtKB/Swiss-Prot
    A8K5Q5, B4DF24, B4DFC1, B4DTU2, F5GZU4, Q96HB5
    Related
    ENSP00000474761.1, ENST00000496529.6
    Conserved Domains (1) summary
    pfam11819
    Location:2 → 140
    DUF3338; Domain of unknown function (DUF3338)

  5. NM_001271836.2 → NP_001258765.1  coiled-coil domain-containing protein 120 isoform 3

    See identical proteins and their annotated locations for NP_001258765.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) differs in the 5' UTR and coding sequence and differs in the 3' UTR and coding sequence compared to variant 1. The resulting isoform (3) is shorter at the N-terminus and has a shorter and distinct C-terminus compared to isoform 1. Variants 3, 5, and 6 all encode the same isoform (3).
    Source sequence(s)
    AK291370, BC008769
    Consensus CDS
    CCDS14316.1
    UniProtKB/Swiss-Prot
    A8K5Q5, B4DF24, B4DFC1, B4DTU2, F5GZU4, Q96HB5
    Related
    ENSP00000470294.1, ENST00000597275.5
    Conserved Domains (1) summary
    pfam11819
    Location:2 → 140
    DUF3338; Domain of unknown function (DUF3338)

  6. NM_033626.3 → NP_296375.1  coiled-coil domain-containing protein 120 isoform 3

    See identical proteins and their annotated locations for NP_296375.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR and coding sequence and the 3' UTR and coding sequence compared to variant 1. The resulting isoform (3) is shorter at the N-terminus and has a shorter and distinct C-terminus compared to isoform 1. Variants 3, 5, and 6 all encode the same isoform (3).
    Source sequence(s)
    BC008769, DA102343
    Consensus CDS
    CCDS14316.1
    UniProtKB/Swiss-Prot
    A8K5Q5, B4DF24, B4DFC1, B4DTU2, F5GZU4, Q96HB5
    Related
    ENSP00000475676.1, ENST00000606812.5
    Conserved Domains (1) summary
    pfam11819
    Location:2 → 140
    DUF3338; Domain of unknown function (DUF3338)

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000023.11 Reference GRCh38.p14 Primary Assembly

    Range
    49053572..49069858
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 PATCHES

Genomic

  1. NW_025791820.1 Reference GRCh38.p14 PATCHES

    Range
    212407..228809
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060947.1 Alternate T2T-CHM13v2.0

    Range
    48465178..48481578
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q96HB5.1 GenPept UniProtKB/Swiss-Prot:Q96HB5

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