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LINC01227 long intergenic non-protein coding RNA 1227 [ Homo sapiens (human) ]

Gene ID: 101928276, updated on 17-Sep-2024

Summary

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Official Symbol
LINC01227provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 1227provided by HGNC
Primary source
HGNC:HGNC:49680
See related
Ensembl:ENSG00000260737 AllianceGenome:HGNC:49680
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
Restricted expression toward testis (RPKM 3.3) See more
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Genomic context

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See LINC01227 in Genome Data Viewer
Location:
16q23.2
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (80567103..80572808, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (86628807..86634512, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (80601000..80606705, complement)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105371357 Neighboring gene uncharacterized LOC105371358 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7739 Neighboring gene DYNLRB2 antisense RNA 1 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr16:80231288-80232487 Neighboring gene ReSE screen-validated silencer GRCh37_chr16:80255087-80255329 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7740 Neighboring gene Sharpr-MPRA regulatory region 10203 Neighboring gene Sharpr-MPRA regulatory region 10573 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:80351553-80352053 Neighboring gene VISTA enhancer hs4 Neighboring gene HNF1 motif-containing MPRA enhancer 101 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr16:80499762-80500344 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr16:80500345-80500926 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7741 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7742 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11167 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11168 Neighboring gene dynein light chain roadblock-type 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:80641586-80642086 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:80642087-80642587 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11169 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11170 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr16:80700312-80701272 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11171 Neighboring gene chromodomain Y like 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:80760822-80761322 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:80761323-80761823 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7743 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7744 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7745 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7746 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7747 Neighboring gene androgen receptor regulated long noncoding RNA 1

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)

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_104665.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript.
    Source sequence(s)
    AC092332

  2. NR_104666.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses alternate exons at the 5' and 3' ends and is shorter than variant 1.
    Source sequence(s)
    BX100000
    Related
    ENST00000561719.5

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_000016.10 Reference GRCh38.p14 Primary Assembly

    Range
    80567103..80572808 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060940.1 Alternate T2T-CHM13v2.0

    Range
    86628807..86634512 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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