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LINC03099 long intergenic non-protein coding RNA 3099 [ Homo sapiens (human) ]

Gene ID: 101927476, updated on 10-Oct-2023

Summary

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Official Symbol
LINC03099provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 3099provided by HGNC
Primary source
HGNC:HGNC:56750
See related
Ensembl:ENSG00000236393
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 adrenal (RPKM 6.8), placenta (RPKM 3.0) and 2 other tissues See more
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Genomic context

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See LINC03099 in Genome Data Viewer
Location:
Xp11.4
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) X NC_000023.11 (40262917..40287721)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) X NC_060947.1 (39664490..39689298)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (40122170..40146974)

Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:39871294-39872017 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20740 Neighboring gene H3K27ac hESC enhancer GRCh37_chrX:39873755-39874254 Neighboring gene long intergenic non-protein coding RNA 3053 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:39918103-39918602 Neighboring gene MED14-independent group 3 enhancer GRCh37_chrX:39932994-39934193 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20741 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chrX:39950161-39950788 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chrX:39952045-39952671 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29534 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20742 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20743 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20744 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20745 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20746 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20747 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:39959601-39960121 Neighboring gene translation initiation factor IF-2-like Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:39961792-39962382 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20748 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20749 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29535 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20750 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20751 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20752 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:39966379-39967135 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20753 Neighboring gene BCL6 corepressor Neighboring gene ReSE screen-validated silencer GRCh37_chrX:39971030-39971309 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:39999891-40000415 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:40007775-40008318 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20754 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chrX:40015867-40016606 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chrX:40016607-40017346 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20755 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20756 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chrX:40028374-40029064 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:40029065-40029755 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20757 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20758 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29537 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20760 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20761 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20759 Neighboring gene ReSE screen-validated silencer GRCh37_chrX:40041386-40041565 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20762 Neighboring gene H3K27ac hESC enhancer GRCh37_chrX:40070301-40070852 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chrX:40097124-40097650 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29538 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29539 Neighboring gene Sharpr-MPRA regulatory region 4836 Neighboring gene small nucleolar RNA U13 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29540 Neighboring gene uncharacterized LOC105373182 Neighboring gene inosine monophosphate dehydrogenase 1 pseudogene 2 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29541 Neighboring gene Sharpr-MPRA regulatory region 9554 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29542 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29543 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:40350139-40350639 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:40377714-40378214 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:40378215-40378715 Neighboring gene RNA, U7 small nuclear 164 pseudogene

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)

Genotypes

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_110386.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC091806
    Related
    ENST00000452690.1

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_000023.11 Reference GRCh38.p14 Primary Assembly

    Range
    40262917..40287721
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060947.1 Alternate T2T-CHM13v2.0

    Range
    39664490..39689298
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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