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MALINC1 mitosis associated long intergenic non-coding RNA 1 [ Homo sapiens (human) ]

Gene ID: 100505636, updated on 10-Oct-2023

Summary

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Official Symbol
MALINC1provided by HGNC
Official Full Name
mitosis associated long intergenic non-coding RNA 1provided by HGNC
Primary source
HGNC:HGNC:49009
See related
AllianceGenome:HGNC:49009
Gene type
ncRNA
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
MA-linc1; LINC01024
Expression
Broad expression in testis (RPKM 3.6), thyroid (RPKM 1.1) and 23 other tissues See more
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Genomic context

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Location:
5q31.3
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 5 NC_000005.10 (140102922..140108012, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 5 NC_060929.1 (140628018..140633108, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (139482507..139487597, complement)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:139121544-139122093 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:139122094-139122642 Neighboring gene ReSE screen-validated silencer GRCh37_chr5:139123561-139124154 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:139125678-139126325 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23253 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16429 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:139128271-139128918 Neighboring gene ReSE screen-validated silencer GRCh37_chr5:139131846-139131997 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16430 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:139137793-139138691 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:139138692-139139589 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:139141892-139142555 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:139142556-139143218 Neighboring gene PSD2 antisense RNA 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:139143219-139143882 Neighboring gene pleckstrin and Sec7 domain containing 2 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16431 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16432 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:139169627-139170127 Neighboring gene ReSE screen-validated silencer GRCh37_chr5:139174912-139175111 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:139194145-139194646 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16435 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16434 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16433 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:139259501-139260264 Neighboring gene neuregulin 2 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16436 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23254 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16437 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23255 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr5:139364881-139366080 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23256 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23257 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23258 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:139422349-139423018 Neighboring gene uncharacterized LOC124900193 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23259 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16440 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16441 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16442 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:139487907-139488408 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16443 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16444 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:139494224-139494861 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23260 Neighboring gene purine rich element binding protein A Neighboring gene IgA inducing protein

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. A novel mitosis-associated lncRNA, MA-linc1, is required for cell cycle progression and sensitizes cancer cells to Paclitaxel. Bida O, et al. Oncotarget, 2015 Sep 29. PMID 26337085, Free PMC Article
  2. SUMOylation of DDX39A Alters Binding and Export of Antiviral Transcripts to Control Innate Immunity. Shi P, et al. J Immunol, 2020 Jul 1. PMID 32393512
  3. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. Kimura K, et al. Genome Res, 2006 Jan. PMID 16344560, Free PMC Article
  4. 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

What's a GeneRIF?
  1. our data identify MA-linc1 as a novel lncRNA regulator of cell cycle and demonstrate its potential role in cancer progression and treatment.
    Title: A novel mitosis-associated lncRNA, MA-linc1, is required for cell cycle progression and sensitizes cancer cells to Paclitaxel.
Submit: New GeneRIF Correction

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

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Other Names

  • CTB-131B5.4
  • long intergenic non-protein coding RNA 1024

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_102739.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript.
    Source sequence(s)
    BC042448, BG772617, DB451602

  2. NR_102740.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) has an alternate splice site and lacks an internal segment in the 5' region, compared to variant 1.
    Source sequence(s)
    AL557445, BC042448, DA277756, DB451602

  3. NR_102741.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) has an alternate splice site and lacks an internal segment in the 5' region, compared to variant 1.
    Source sequence(s)
    BC042448, BG772617, DB451602

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_000005.10 Reference GRCh38.p14 Primary Assembly

    Range
    140102922..140108012 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060929.1 Alternate T2T-CHM13v2.0

    Range
    140628018..140633108 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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