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CCDC169 coiled-coil domain containing 169 [ Homo sapiens (human) ]

Gene ID: 728591, updated on 5-Mar-2024

Summary

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Official Symbol
CCDC169provided by HGNC
Official Full Name
coiled-coil domain containing 169provided by HGNC
Primary source
HGNC:HGNC:34361
See related
Ensembl:ENSG00000242715 AllianceGenome:HGNC:34361
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
C13orf38
Expression
Restricted expression toward testis (RPKM 22.3) See more
Orthologs
mouse all
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Genomic context

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Location:
13q13.3
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 13 NC_000013.11 (36222004..36297814, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 13 NC_060937.1 (35441522..35517321, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 13 NC_000013.10 (36796141..36871951, complement)

Chromosome 13 - NC_000013.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107984604 Neighboring gene CCDC169-SOHLH2 readthrough Neighboring gene spermatogenesis and oogenesis specific basic helix-loop-helix 2 Neighboring gene MPRA-validated peak2068 silencer Neighboring gene Sharpr-MPRA regulatory region 14903 Neighboring gene RNA, U6 small nuclear 71, pseudogene Neighboring gene H3K27ac hESC enhancer GRCh37_chr13:36871578-36872539 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr13:36872540-36873502 Neighboring gene NANOG hESC enhancer GRCh37_chr13:36887598-36888362 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr13:36890200-36891034 Neighboring gene H3K27ac hESC enhancer GRCh37_chr13:36891035-36891868 Neighboring gene H3K27ac hESC enhancer GRCh37_chr13:36894061-36894764 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr13:36895467-36896169 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr13:36896170-36896871 Neighboring gene Sharpr-MPRA regulatory region 3304 Neighboring gene spartin Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5263 Neighboring gene SPART antisense RNA 1 Neighboring gene ReSE screen-validated silencer GRCh37_chr13:36962882-36963065 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5264 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5265 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5266 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr13:37011626-37012825 Neighboring gene cyclin A1

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. The sequence of the human genome. Venter JC, et al. Science, 2001 Feb 16. PMID 11181995
  2. Estrogen-regulated feedback loop limits the efficacy of estrogen receptor-targeted breast cancer therapy. Xiao T, et al. Proc Natl Acad Sci U S A, 2018 Jul 31. PMID 29987050, Free PMC Article
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. Ota T, et al. Nat Genet, 2004 Jan. PMID 14702039
  4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

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

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

Readthrough CCDC169-SOHLH2

Readthrough gene: CCDC169-SOHLH2, Included gene: SOHLH2

Homology

Clone Names

  • FLJ13506, FLJ29024, FLJ57222

General protein information

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Preferred Names
coiled-coil domain-containing protein 169
Names
RP11-251J8.1

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_001144981.3 → NP_001138453.1  coiled-coil domain-containing protein 169 isoform a

    See identical proteins and their annotated locations for NP_001138453.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes isoform a.
    Source sequence(s)
    AK308999, DB454585, DN999189
    Consensus CDS
    CCDS45028.1
    UniProtKB/Swiss-Prot
    A6NC13, A6NCT2, A6NNP5, B7ZW45, B7ZW49, B9EJF2, Q9H1T4, Q9H1T5
    Related
    ENSP00000239859.7, ENST00000239859.8
    Conserved Domains (1) summary
    pfam15372
    Location:54 → 181
    DUF4600; Domain of unknown function (DUF4600)

  2. NM_001144982.3 → NP_001138454.1  coiled-coil domain-containing protein 169 isoform b

    See identical proteins and their annotated locations for NP_001138454.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate exon near the 5' end, uses a downstream start codon, and uses an alternate 3' exon, compared to variant 1. The resulting isoform (b) has a shorter N-terminus and a distinct C-terminus, compared to isoform a. Variants 2 and 3 encode the same isoform.
    Source sequence(s)
    AA861917, AL139377, AL160392, BC171867, DB454585
    Consensus CDS
    CCDS45027.1
    UniProtKB/Swiss-Prot
    A6NNP5
    Related
    ENSP00000369193.2, ENST00000379864.6
    Conserved Domains (1) summary
    pfam15372
    Location:1 → 79
    DUF4600; Domain of unknown function (DUF4600)

  3. NM_001144983.3 → NP_001138455.1  coiled-coil domain-containing protein 169 isoform b

    See identical proteins and their annotated locations for NP_001138455.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks an alternate exon and uses an alternate splice site near the 5' end, uses a downstream start codon, and uses an alternate 3' exon, compared to variant 1. The resulting isoform (b) has a shorter N-terminus and a distinct C-terminus, compared to isoform a. Variants 2 and 3 encode the same isoform.
    Source sequence(s)
    AA861917, AL139377, AL160392, BC171880, DB454585
    Consensus CDS
    CCDS45027.1
    UniProtKB/Swiss-Prot
    A6NNP5
    Related
    ENSP00000425252.1, ENST00000491049.6
    Conserved Domains (1) summary
    pfam15372
    Location:1 → 79
    DUF4600; Domain of unknown function (DUF4600)

  4. NM_001144984.3 → NP_001138456.1  coiled-coil domain-containing protein 169 isoform c

    See identical proteins and their annotated locations for NP_001138456.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) lacks two alternate exons in the 5' region, uses a downstream start codon, and uses an alternate 3' exon, compared to variant 1. The resulting isoform (c) has a shorter and distinct N-terminus and a distinct C-terminus, compared to isoform a.
    Source sequence(s)
    AA861917, AL139377, AL160392, BC171874, DB454585
    Consensus CDS
    CCDS53863.1
    UniProtKB/Swiss-Prot
    A6NNP5
    Related
    ENSP00000239860.6, ENST00000239860.10
    Conserved Domains (1) summary
    pfam15372
    Location:6 → 81
    DUF4600; Domain of unknown function (DUF4600)

  5. NM_001144985.3 → NP_001138457.1  coiled-coil domain-containing protein 169 isoform d

    See identical proteins and their annotated locations for NP_001138457.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) lacks an alternate exon near the 5' end and uses a downstream start codon, compared to variant 1. The resulting isoform (d) has a shorter N-terminus, compared to isoform a. Variants 5 and 6 encode the same isoform.
    Source sequence(s)
    AK308999
    Consensus CDS
    CCDS45029.1
    UniProtKB/Swiss-Prot
    A6NNP5
    Related
    ENSP00000427495.1, ENST00000510088.5
    Conserved Domains (1) summary
    pfam15372
    Location:1 → 79
    DUF4600; Domain of unknown function (DUF4600)

  6. NM_001144986.3 → NP_001138458.1  coiled-coil domain-containing protein 169 isoform d

    See identical proteins and their annotated locations for NP_001138458.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) lacks an alternate exon and uses an alternate splice site near the 5' end, and uses a downstream start codon, compared to variant 1. The resulting isoform (d) has a shorter N-terminus, compared to isoform a. Variants 5 and 6 encode the same isoform.
    Source sequence(s)
    AK308999, BC171880, DB454585
    Consensus CDS
    CCDS45029.1
    UniProtKB/Swiss-Prot
    A6NNP5
    Related
    ENSP00000369191.2, ENST00000379862.6
    Conserved Domains (1) summary
    pfam15372
    Location:1 → 79
    DUF4600; Domain of unknown function (DUF4600)

  7. NM_001198908.2 → NP_001185837.1  coiled-coil domain-containing protein 169 isoform e

    See identical proteins and their annotated locations for NP_001185837.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (7) differs in the 3' coding region and 3' UTR, compared to variant 1. The resulting isoform (e) has a distinct and longer C-terminus, compared to isoform a.
    Source sequence(s)
    AA861917, AL139377, AL160392, BC146975, DB454585
    Consensus CDS
    CCDS55897.1
    UniProtKB/Swiss-Prot
    A6NNP5
    Related
    ENSP00000426174.1, ENST00000503173.5
    Conserved Domains (1) summary
    pfam15372
    Location:54 → 181
    DUF4600; Domain of unknown function (DUF4600)

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_000013.11 Reference GRCh38.p14 Primary Assembly

    Range
    36222004..36297814 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060937.1 Alternate T2T-CHM13v2.0

    Range
    35441522..35517321 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
A6NNP5.4 GenPept UniProtKB/Swiss-Prot:A6NNP5

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