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LINC00623 long intergenic non-protein coding RNA 623 [ Homo sapiens (human) ]

Gene ID: 728855, updated on 17-Jun-2024

Summary

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Official Symbol
LINC00623provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 623provided by HGNC
Primary source
HGNC:HGNC:44252
See related
AllianceGenome:HGNC:44252
Gene type
ncRNA
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
CH17-118O6.2
Expression
Ubiquitous expression in lymph node (RPKM 5.8), spleen (RPKM 5.8) and 25 other tissues See more
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Genomic context

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See LINC00623 in Genome Data Viewer
Location:
1p11.2
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (120912238..120955811)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (120921611..120965202)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (144298164..144341756, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1251 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:147993136-147993980 Neighboring gene RNA, variant U1 small nuclear 19 Neighboring gene uncharacterized LOC124904393 Neighboring gene peptidylprolyl isomerase A like 4A Neighboring gene uncharacterized LOC100996720 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:149577239-149577777 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:149577778-149578315 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr1:144496218-144496799 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:149601377-149602004 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:149602005-149602632 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:144493899-144494399 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:144493398-144493898 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:144491667-144492381 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:144310745-144311448 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:144481363-144482061 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:144480662-144481362 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr1:149619223-149619776 Neighboring gene RNA, variant U1 small nuclear 4 Neighboring gene NBPF member 6 pseudogene Neighboring gene family with sequence similarity 91 member A4, pseudogene Neighboring gene PDE4DIP pseudogene 4

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. Long non-coding RNA ENST00000457645 reverses cisplatin resistance in CP70 ovarian cancer cells. Yan H, et al. Genet Mol Res, 2017 Jan 23. PMID 28128423
  2. The LINC00623/NAT10 signaling axis promotes pancreatic cancer progression by remodeling ac4C modification of mRNA. Feng Z, et al. J Hematol Oncol, 2022 Aug 17. PMID 35978332, Free PMC Article
  3. Transcriptome analysis of human gastric cancer. Oh JH, et al. Mamm Genome, 2005 Dec. PMID 16341674
  4. 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
  5. 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

What's a GeneRIF?
  1. Discriminative and prognostic significance of LINC00623 for lung adenocarcinoma.
    Title: Discriminative and prognostic significance of LINC00623 for lung adenocarcinoma.
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

  • FLJ18420

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_024510.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript.
    Source sequence(s)
    AC241377, AK311378, DA488546

  2. NR_024511.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an internal segment in the 3' region, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AC241377, BM761975, DA488546

  3. NR_024584.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs at the 5' end and lacks an internal segment in the 3' region, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AC241377

  4. NR_109754.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks an internal segment in the 3' region, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AC241377, BE890886, DA488546

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
    120912238..120955811
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    120921611..120965202
    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.

Molecular Biology Databases
Research Materials