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E130006D01Rik RIKEN cDNA E130006D01 gene [ Mus musculus (house mouse) ]

Gene ID: 269683, updated on 8-Feb-2024

Summary

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Official Symbol
E130006D01Rikprovided by MGI
Official Full Name
RIKEN cDNA E130006D01 geneprovided by MGI
Primary source
MGI:MGI:2685527
See related
Ensembl:ENSMUSG00000085271 AllianceGenome:MGI:2685527
Gene type
ncRNA
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Gm681; Gm16018; Hrtlincr5
Summary
Is expressed in several structures, including cardiogenic plate; embryo mesoderm; and skeleton. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in CNS E11.5 (RPKM 3.5), CNS E14 (RPKM 2.5) and 6 other tissues See more
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Genomic context

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Location:
5 F; 5 54.23 cM
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (111882150..111909594, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (111734284..111761728, complement)

Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene VISTA enhancer mm921 Neighboring gene predicted gene, 36434 Neighboring gene predicted gene, 36481 Neighboring gene predicted gene, 36535 Neighboring gene STARR-seq mESC enhancer starr_13992 Neighboring gene CapStarr-seq enhancer MGSCv37_chr5:112322088-112322289 Neighboring gene predicted gene, 29935 Neighboring gene predicted gene, 36794

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. Minimal in vivo requirements for developmentally regulated cardiac long intergenic non-coding RNAs. George MR, et al. Development, 2019 Dec 9. PMID 31784461, Free PMC Article
  2. The Vertebrate Genome Annotation browser 10 years on. Harrow JL, et al. Nucleic Acids Res, 2014 Jan. PMID 24316575, Free PMC Article
  3. Wnk1 kinase deficiency lowers blood pressure in mice: a gene-trap screen to identify potential targets for therapeutic intervention. Zambrowicz BP, et al. Proc Natl Acad Sci U S A, 2003 Nov 25. PMID 14610273, Free PMC Article
  4. A high-resolution anatomical atlas of the transcriptome in the mouse embryo. Diez-Roux G, et al. PLoS Biol, 2011 Jan 18. PMID 21267068, Free PMC Article
  5. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073

See all (12) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

General gene information

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Clone Names

  • AC122005.1

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_045832.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript.
    Source sequence(s)
    AC122005, AK087393
    Related
    ENSMUST00000137398.9

  2. NR_045833.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate splice site in the 3' region, compared to variant 1.
    Source sequence(s)
    AC122005, BB537478, BC087866
    Related
    ENSMUST00000247100.1

  3. NR_045834.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks an exon and uses an alternate splice site in the 3' region, compared to variant 1.
    Source sequence(s)
    AC122005, BB537478, BX529972
    Related
    ENSMUST00000129146.3

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000071.7 Reference GRCm39 C57BL/6J

    Range
    111882150..111909594 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_207252.1: Suppressed sequence

    Description
    NM_207252.1: This RefSeq was permanently suppressed because currently there is support for the transcript but not for the protein.
Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

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