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LINC02987 long intergenic non-protein coding RNA 2987 [ Homo sapiens (human) ]

Gene ID: 101927151, updated on 28-Oct-2024

Summary

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Official Symbol
LINC02987provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 2987provided by HGNC
Primary source
HGNC:HGNC:56093
See related
Ensembl:ENSG00000267575 AllianceGenome:HGNC:56093
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 testis (RPKM 2.9), prostate (RPKM 2.2) and 25 other tissues See more
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Genomic context

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See LINC02987 in Genome Data Viewer
Location:
19q11
Exon count:
21
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (27793431..28024969)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (30321225..30554644)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (28284339..28515876)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124904678 Neighboring gene NANOG hESC enhancer GRCh37_chr19:24584392-24584893 Neighboring gene NANOG hESC enhancer GRCh37_chr19:24585417-24585918 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr19:24625458-24626443 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr19:24630995-24631601 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr19:27735098-27735622 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:27739713-27740586 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:27738839-27739712 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:27737965-27738838 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:27737089-27737964 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:27736489-27737057 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:27735920-27736488 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:27734156-27735007 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:27733303-27734155 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:27732451-27733302 Neighboring gene NANOG hESC enhancer GRCh37_chr19:27808230-27808731 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr19:27814077-27814586 Neighboring gene NANOG hESC enhancer GRCh37_chr19:27813523-27814024 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr19:27812477-27813220 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr19:27836954-27837540 Neighboring gene NANOG hESC enhancer GRCh37_chr19:27844808-27845309 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr19:27874272-27875240 Neighboring gene NANOG hESC enhancer GRCh37_chr19:27875298-27875799 Neighboring gene NANOG hESC enhancer GRCh37_chr19:27877672-27878173 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr19:27894379-27895360 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr19:27897397-27897916 Neighboring gene uncharacterized LOC105372345 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14401 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:28286227-28287008 Neighboring gene uncharacterized LOC105372348 Neighboring gene uncharacterized LOC105372347 Neighboring gene long intergenic non-protein coding RNA 662 Neighboring gene zinc finger protein 709 pseudogene Neighboring gene uncharacterized LOC105372346 Neighboring gene solute carrier family 25 member 1 pseudogene 5 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14402 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14403 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14404 Neighboring gene vomeronasal 1 receptor 95 pseudogene Neighboring gene NANOG hESC enhancer GRCh37_chr19:28621443-28621988 Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:28659458-28660167 Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:28660168-28660878 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr19:28726469-28727180 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:28727181-28727891 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:28760939-28761439 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr19:28781600-28782131 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr19:28794338-28794874 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr19:28804274-28805473 Neighboring gene MPRA-validated peak3420 silencer Neighboring gene MPRA-validated peak3419 silencer Neighboring gene ReSE screen-validated silencer GRCh37_chr19:28881947-28882183 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:28890814-28891468 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr19:28891469-28892122 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:28893490-28894450 Neighboring gene Sharpr-MPRA regulatory region 924 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:28917241-28917759 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:28916721-28917240 Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:28913828-28914513 Neighboring gene MPRA-validated peak3422 silencer Neighboring gene SHC binding and spindle associated 1 pseudogene Neighboring gene uncharacterized LOC105372349 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr19:28936697-28937404 Neighboring gene Sharpr-MPRA regulatory region 12624 Neighboring gene ReSE screen-validated silencer GRCh37_chr19:29036304-29036510 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:29080318-29080960 Neighboring gene uncharacterized LOC124904681 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr19:29096818-29098017 Neighboring gene endogenous retrovirus group E member 5

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 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. Transcriptome characterization elucidates signaling networks that control human ES cell growth and differentiation. Brandenberger R, et al. Nat Biotechnol, 2004 Jun. PMID 15146197
  2. 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)

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_110687.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC006504

  2. NR_110688.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC006504

  3. NR_110689.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC006504
    Related
    ENST00000659857.3

  4. NR_110690.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC006504
    Related
    ENST00000748620.1

  5. NR_110691.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC006504
    Related
    ENST00000590628.1

  6. NR_146733.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) contains an alternate 3' exon structure and is longer than variant 1.
    Source sequence(s)
    AC005357, AC005758, AC006504, AC020944, AC022153

  7. NR_146734.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (7) contains an alternate 3' exon strcture and is longer than variant 1.
    Source sequence(s)
    AC005357, AC005758, AC006504, AC022153

  8. NR_146735.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (8) contains an alternate 3' exon structure compared to variant 1.
    Source sequence(s)
    AC005357, AC005758, AC006504
    Related
    ENST00000748552.1

  9. NR_146736.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (9) differs in the 3' terminal exon compared to variant 1.
    Source sequence(s)
    AC006504
    Related
    ENST00000668903.2

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_000019.10 Reference GRCh38.p14 Primary Assembly

    Range
    27793431..28024969
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060943.1 Alternate T2T-CHM13v2.0

    Range
    30321225..30554644
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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