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LINC03021 long intergenic non-protein coding RNA 3021 [ Homo sapiens (human) ]

Gene ID: 101927815, updated on 8-Nov-2023

Summary

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Official Symbol
LINC03021provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 3021provided by HGNC
Primary source
HGNC:HGNC:56149
See related
Ensembl:ENSG00000254319
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
Low expression observed in reference dataset See more
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Genomic context

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See LINC03021 in Genome Data Viewer
Location:
8p23.2
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 8 NC_000008.11 (2530092..2728451, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 8 NC_060932.1 (2283639..2482124, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (2387219..2585991, complement)

Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:2198229-2199013 Neighboring gene uncharacterized LOC105377783 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:2199014-2199799 Neighboring gene ReSE screen-validated silencer GRCh37_chr8:2204711-2204884 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr8:2206168-2207367 duplicate 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:2212147-2212701 Neighboring gene ReSE screen-validated silencer GRCh37_chr8:2224809-2224986 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:2230117-2230734 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr8:2231642-2232172 Neighboring gene H3K27ac hESC enhancer GRCh37_chr8:2244841-2245340 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:2282596-2283334 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:2283335-2284073 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr8:2206168-2207367 duplicate 2 Neighboring gene uncharacterized LOC105377784 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr8:2362643-2363842 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr8:2382994-2383722 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr8:2383723-2384449 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:2419495-2420034 Neighboring gene uncharacterized LOC107986865 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr8:2547000-2547500 Neighboring gene uncharacterized LOC105377785 Neighboring gene Sharpr-MPRA regulatory region 12422 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_102978 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:2670718-2671218 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:2671219-2671719 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr8:2734767-2735966 Neighboring gene Sharpr-MPRA regulatory region 746 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:2743811-2744593 Neighboring gene uncharacterized LOC124901871 Neighboring gene Sharpr-MPRA regulatory region 9194 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr8:2842983-2843550 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:2883555-2884056 Neighboring gene NANOG hESC enhancer GRCh37_chr8:2916031-2916747 Neighboring gene ReSE screen-validated silencer GRCh37_chr8:2928398-2928606 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr8:2964721-2965920 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:2990813-2991505 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:3020562-3021062 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:3021063-3021563 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr8:3025942-3027141 Neighboring gene CUB and Sushi multiple domains 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:3068799-3069337 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr8:3101495-3102167 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr8:3102168-3102840 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr8:3102841-3103512 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr8:3203901-3204560 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_103217 Neighboring gene uncharacterized LOC105377791

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. 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
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. Ota T, et al. Nat Genet, 2004 Jan. PMID 14702039
  3. 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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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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Clone Names

  • FLJ46912

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_125423.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript.
    Source sequence(s)
    AC245123

  2. NR_125425.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in both the 5' and 3' terminal exons, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AC245123, DA263654, DA782209

  3. NR_125426.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) contains different exons, compared to variant 1, but shares the 5' terminal exon with variant 2. It is shorter than variant 1.
    Source sequence(s)
    AA929006, AK128880, DA782209
    Related
    ENST00000520842.6

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_000008.11 Reference GRCh38.p14 Primary Assembly

    Range
    2530092..2728451 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 ALT_REF_LOCI_1

Genomic

  1. NT_187576.1 Reference GRCh38.p14 ALT_REF_LOCI_1

    Range
    697789..896517 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060932.1 Alternate T2T-CHM13v2.0

    Range
    2283639..2482124 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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