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LINC00461 long intergenic non-protein coding RNA 461 [ Homo sapiens (human) ]

Gene ID: 645323, updated on 11-Jun-2021

Summary

Official Symbol
LINC00461provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 461provided by HGNC
Primary source
HGNC:HGNC:42810
See related
Ensembl:ENSG00000245526 MIM:616611
Gene type
ncRNA
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
VISC; NDIME; ECONEXIN; EyeLinc1
Summary
This is an evolutionarily conserved gene that produces alternatively spliced long non-coding RNAs that may be expressed predominantly in the brain and visual cortex. These transcripts may be involved in tumorigenesis, as depletion by siRNA suppressed glioma cell division. Transcripts may also bind to and regulate the activity of miR-411-5p and argonaut 2, thereby altering the expression of genes involved in tumor growth. [provided by RefSeq, Nov 2017]
Expression
Restricted expression toward brain (RPKM 29.6) See more
Orthologs
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Genomic context

See LINC00461 in Genome Data Viewer
Location:
5q14.3
Exon count:
10
Annotation release Status Assembly Chr Location
109.20210514 current GRCh38.p13 (GCF_000001405.39) 5 NC_000005.10 (88538266..88691041, complement)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (87834084..87986858, complement)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene TMEM161B divergent transcript Neighboring gene long intergenic non-protein coding RNA 2060 Neighboring gene CRE1 CAGE-defined tissue-specific enhancer Neighboring gene H3 histone pseudogene 23 Neighboring gene MEF2C antisense RNA 2 Neighboring gene microRNA 9-2 Neighboring gene uncharacterized LOC107986361 Neighboring gene myocyte enhancer factor 2C Neighboring gene uncharacterized LOC107986360 Neighboring gene MEF2C antisense RNA 1

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

Associated conditions

Description Tests
Common genetic variants associated with cognitive performance identified using the proxy-phenotype method.
GeneReviews: Not available
Four novel Loci (19q13, 6q24, 12q24, and 5q14) influence the microcirculation in vivo.
GeneReviews: Not available
Meta-analysis of genome-wide association studies in East Asian-ancestry populations identifies four new loci for body mass index.
GeneReviews: Not available

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Other Names

  • evolutionary conserved and expressed in neural tissues (ECONEXIN)
  • lincRNA 461
  • neural differentiation initiation of MEF2C expression
  • visual cortex-expressed

Gene Ontology Provided by GOA

Process Evidence Code Pubs
involved_in gene silencing by miRNA IEA
Inferred from Electronic Annotation
more info
 

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_015436.2 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AC008526, DA495096, DA778665
  2. NR_024383.2 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AK055372, BC047100, BM661956, DA217450, DA493278
    Related
    ENST00000666195.1
  3. NR_024384.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) is also known as ECONEXIN.
    Source sequence(s)
    AC026701, AK055372, BC047100, BM661956, DB490657, DC320345
    Related
    ENST00000505030.6
  4. NR_152232.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AC026701, AK055372, BC047100, BM661956, DA807261
  5. NR_152233.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AC008525, AC026701, BC047100
    Related
    ENST00000663276.1
  6. NR_152234.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AC008525, AC026701, BC047100
    Related
    ENST00000511014.7
  7. NR_152235.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AC008525, AC008526, AC026701
  8. NR_152236.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AC008525, AC026701, BC047100
    Related
    ENST00000509265.2
  9. NR_152237.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AA082758, AC008525, AK055372, BC047100, BM661956
  10. NR_152238.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AC008526, DA217450, DA807977
  11. NR_152239.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AC008526, DA217450, DA783765
  12. NR_152240.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AC026701, AK055372, AK091356, BC047100, BM661956, DC320345
  13. NR_152241.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AC026701, AK055372, BC036480, BC047100, BM661956
    Related
    ENST00000500197.6
  14. NR_152242.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AC008526, AC026701

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210514

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000005.10 Reference GRCh38.p13 Primary Assembly

    Range
    88538266..88691041 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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