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LINC02417 long intergenic non-protein coding RNA 2417 [ Homo sapiens (human) ]

Gene ID: 101930162, updated on 10-Oct-2023

Summary

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Official Symbol
LINC02417provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 2417provided by HGNC
Primary source
HGNC:HGNC:53347
See related
AllianceGenome:HGNC:53347
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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Location:
12p13.32
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (3368108..3371601)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (3374624..3378119)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (3477274..3480767)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene tetraspanin 9 Neighboring gene uncharacterized LOC124902861 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:3340427-3341425 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:3344565-3345246 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:3345247-3345928 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:3351329-3352214 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:3352304-3352804 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:3373093-3373682 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:3373683-3374271 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:3393392-3393892 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:3393893-3394393 Neighboring gene uncharacterized LOC100128253 Neighboring gene Sharpr-MPRA regulatory region 1542 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5817 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr12:3421757-3422956 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4140 Neighboring gene long intergenic non-protein coding RNA 2827 Neighboring gene tetraspanin 11 pseudogene Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:3435715-3436214 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr12:3443867-3445066 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:3474236-3474788 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:3474789-3475339 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:3507121-3507664 Neighboring gene uncharacterized LOC105369607 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr12:3530371-3531006 Neighboring gene protein arginine methyltransferase 8 Neighboring gene uncharacterized LOC124902862

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)

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_146865.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC005908, AW270974, BM052658

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_000012.12 Reference GRCh38.p14 Primary Assembly

    Range
    3368108..3371601
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060936.1 Alternate T2T-CHM13v2.0

    Range
    3374624..3378119
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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