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    Ankrd39 ankyrin repeat domain 39 [ Mus musculus (house mouse) ]

    Gene ID: 109346, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Ankrd39provided by MGI
    Official Full Name
    ankyrin repeat domain 39provided by MGI
    Primary source
    MGI:MGI:1914816
    See related
    Ensembl:ENSMUSG00000079610 AllianceGenome:MGI:1914816
    Gene type
    protein coding
    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
    9130416N05Rik; C030004B10Rik
    Summary
    Is expressed in dorsal root ganglion and ventral grey horn. Orthologous to human ANKRD39 (ankyrin repeat domain 39). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in ovary adult (RPKM 9.8), adrenal adult (RPKM 7.8) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Ankrd39 in Genome Data Viewer
    Location:
    1 B; 1 15.32 cM
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (36577252..36586333, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (36538171..36547252, complement)

    Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 33454 Neighboring gene cyclin M4 Neighboring gene STARR-positive B cell enhancer mm9_chr1:36568490-36568791 Neighboring gene cyclin M3 Neighboring gene ankyrin repeat domain 23 Neighboring gene STARR-positive B cell enhancer ABC_E320 Neighboring gene sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4C Neighboring gene family with sequence similarity 178, member B Neighboring gene STARR-seq mESC enhancer starr_00646

    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 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. Viral Infection-Induced Differential Expression of LncRNAs Associated with Collagen in Mouse Placentas and Amniotic Sacs. Pan J, et al. Am J Reprod Immunol, 2015 Sep. PMID 26073538
    2. Libraries enriched for alternatively spliced exons reveal splicing patterns in melanocytes and melanomas. Watahiki A, et al. Nat Methods, 2004 Dec. PMID 15782199
    3. A conditional knockout resource for the genome-wide study of mouse gene function. Skarnes WC, et al. Nature, 2011 Jun 15. PMID 21677750, Free PMC Article
    4. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548
    5. 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

    See all (14) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  

    General protein information

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    Preferred Names
    ankyrin repeat domain-containing protein 39

    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.

    mRNA and Protein(s)

    1. NM_001310533.1 → NP_001297462.1  ankyrin repeat domain-containing protein 39 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate splice junction in the 3' end of the coding sequence compared to variant 1, that causes a frameshift. The resulting isoform (2) has a shorter and distinct C-terminus compared to isoform 1.
      Source sequence(s)
      AK042896, BB858219, BC144893, CD775078
      Consensus CDS
      CCDS78565.1
      UniProtKB/TrEMBL
      A0A0A6YWV1
      Related
      ENSMUSP00000141712.2, ENSMUST00000194894.4
      Conserved Domains (3) summary
      cd00204
      Location:38 → 140
      ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...
      pfam12796
      Location:38 → 127
      Ank_2; Ankyrin repeats (3 copies)
      sd00045
      Location:63 → 94
      ANK; ANK repeat [structural motif]

    2. NM_026241.4 → NP_080517.1  ankyrin repeat domain-containing protein 39 isoform 1

      See identical proteins and their annotated locations for NP_080517.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1).
      Source sequence(s)
      AK042896, BB858219, BC119100, CD775078
      Consensus CDS
      CCDS14883.1
      UniProtKB/Swiss-Prot
      Q9D2X0
      UniProtKB/TrEMBL
      Q14A32
      Related
      ENSMUSP00000001172.6, ENSMUST00000001172.12
      Conserved Domains (4) summary
      cd00204
      Location:38 → 150
      ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...
      pfam12796
      Location:38 → 127
      Ank_2; Ankyrin repeats (3 copies)
      pfam13857
      Location:116 → 170
      Ank_5; Ankyrin repeats (many copies)
      sd00045
      Location:64 → 94
      ANK; ANK repeat [structural motif]

    RNA

    1. NR_132321.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses an alternate splice junction in the 5' end compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AK030874, BB858219, CD775078

    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_000067.7 Reference GRCm39 C57BL/6J

      Range
      36577252..36586333 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9D2X0.1 GenPept UniProtKB/Swiss-Prot:Q9D2X0

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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