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LINC01398 long intergenic non-protein coding RNA 1398 [ Homo sapiens (human) ]

Gene ID: 101929651, updated on 10-Oct-2023

Summary

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Official Symbol
LINC01398provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 1398provided by HGNC
Primary source
HGNC:HGNC:50678
See related
Ensembl:ENSG00000224863 AllianceGenome:HGNC:50678
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:
1p33
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (46446673..46449704, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (46323889..46326919, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (46912345..46915376, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:46859877-46860390 Neighboring gene fatty acid amide hydrolase Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1001 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:46898417-46899137 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1002 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1003 Neighboring gene fatty acid amide hydrolase pseudogene 1 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:46913491-46914002 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:46914003-46914516 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:46923637-46924504 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:46932086-46932802 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:46932803-46933519 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:46951173-46951720 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:46955716-46956520 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:46957329-46957982 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:46957983-46958634 Neighboring gene diencephalon/mesencephalon homeobox 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:46977425-46978070 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:46982609-46983460 Neighboring gene H3K4me1 hESC enhancers GRCh37_chr1:46987892-46988843 and GRCh37_chr1:46988844-46989794 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:46989795-46990745 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr1:46990746-46991695 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 846 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 847 Neighboring gene transmembrane protein 275

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. 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

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_121680.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL137797
    Related
    ENST00000416581.1

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_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    46446673..46449704 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    46323889..46326919 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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