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C2CD4D-AS1 C2CD4D and THEM5 antisense RNA 1 [ Homo sapiens (human) ]

Gene ID: 100132111, updated on 10-Oct-2023

Summary

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Official Symbol
C2CD4D-AS1provided by HGNC
Official Full Name
C2CD4D and THEM5 antisense RNA 1provided by HGNC
Primary source
HGNC:HGNC:54045
See related
AllianceGenome:HGNC:54045
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
Ubiquitous expression in brain (RPKM 2.5), kidney (RPKM 1.8) and 21 other tissues See more
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Genomic context

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Location:
1q21.3
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (151838277..151851535)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (150961775..150974988)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (151810753..151824011)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:151781322-151781822 Neighboring gene leucine rich repeat and Ig domain containing 4 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:151787417-151787917 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:151794559-151795060 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:151795061-151795560 Neighboring gene RAR related orphan receptor C Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:151797330-151798265 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:151801527-151802212 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:151802899-151803586 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1327 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1328 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1329 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1725 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1726 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:151820400-151821167 Neighboring gene C2 calcium dependent domain containing 4D Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:151832751-151833558 Neighboring gene thioesterase superfamily member 5 Neighboring gene thioesterase superfamily member 4 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr1:151870195-151871394 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:151878733-151879272 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1330 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1727 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr1:151882372-151882959 Neighboring gene Sharpr-MPRA regulatory region 4547 Neighboring gene uncharacterized LOC124904421 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1331 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr1:151909054-151909699 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr1:151918150-151918685 Neighboring gene keratin 8 pseudogene 28

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. ETV4 mediated lncRNA C2CD4D-AS1 overexpression contributes to the malignant phenotype of lung adenocarcinoma cells via miR-3681-3p/NEK2 axis. Wang B, et al. Cell Cycle, 2021 Dec. PMID 34850664, Free PMC Article
  2. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. Kimura K, et al. Genome Res, 2006 Jan. PMID 16344560, Free PMC Article

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. ETV4 mediated lncRNA C2CD4D-AS1 overexpression contributes to the malignant phenotype of lung adenocarcinoma cells via miR-3681-3p/NEK2 axis.
    Title: ETV4 mediated lncRNA C2CD4D-AS1 overexpression contributes to the malignant phenotype of lung adenocarcinoma cells via miR-3681-3p/NEK2 axis.
Submit: New GeneRIF Correction

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)

Genotypes

General gene information

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Markers

Clone Names

  • AL450992.2

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_024237.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL450992, AL589765

  2. NR_152846.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL450992, AL589765

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_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    151838277..151851535
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    150961775..150974988
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
Molecular Biology Databases