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CCDC54-AS1 CCDC54 antisense RNA 1 [ Homo sapiens (human) ]

Gene ID: 101929579, updated on 10-Dec-2024

Summary

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Official Symbol
CCDC54-AS1provided by HGNC
Official Full Name
CCDC54 antisense RNA 1provided by HGNC
Primary source
HGNC:HGNC:56107
See related
AllianceGenome:HGNC:56107
Gene type
ncRNA
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Expression
Biased expression in placenta (RPKM 2.0), testis (RPKM 1.2) and 7 other tissues See more
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Genomic context

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See CCDC54-AS1 in Genome Data Viewer
Location:
3q13.12
Exon count:
2
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (107380476..107382159, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (110100179..110101862, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (107099323..107101006, complement)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene MED14-independent group 3 enhancer GRCh37_chr3:107085622-107086821 Neighboring gene CS pseudogene 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:107127150-107127650 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:107127651-107128151 Neighboring gene coiled-coil domain containing 54 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14586 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20202 Neighboring gene long intergenic non-protein coding RNA 1990 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:107188782-107189520 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:107189521-107190259 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr3:107195157-107195742 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20203 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14587 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14588 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14589 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14590 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20204 Neighboring gene BBX high mobility group box domain containing Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr3:107317361-107318183 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:107319851-107320351 Neighboring gene MPRA-validated peak4758 silencer

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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GeneRIFs: Gene References Into Functions

Phenotypes

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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)

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.

RNA

  1. NR_126332.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    BQ022509, W25215

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_000003.12 Reference GRCh38.p14 Primary Assembly

    Range
    107380476..107382159 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    110100179..110101862 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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