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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

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