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1700028K03Rik RIKEN cDNA 1700028K03 gene [ Mus musculus (house mouse) ]

Gene ID: 76421, updated on 21-Apr-2024

Summary

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Official Symbol
1700028K03Rikprovided by MGI
Official Full Name
RIKEN cDNA 1700028K03 geneprovided by MGI
Primary source
MGI:MGI:1923671
See related
Ensembl:ENSMUSG00000089798 AllianceGenome:MGI:1923671
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
SCRE; Spo16
Summary
Involved in reciprocal meiotic recombination and synaptonemal complex assembly. Located in chromosome. Is expressed in ovary; spermatid; spermatocyte; spermatogonium; and testis. Orthologous to human C1orf146 (chromosome 1 open reading frame 146). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in testis adult (RPKM 1.9), limb E14.5 (RPKM 1.4) and 23 other tissues See more
Orthologs
human all
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Genomic context

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Location:
5 F; 5 52.23 cM
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (107682586..107699415)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (107534720..107551549)

Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene BTB domain containing 8 Neighboring gene predicted gene, 33885 Neighboring gene LSM12 homolog pseudogene Neighboring gene glomulin, FKBP associated protein Neighboring gene STARR-seq mESC enhancer starr_13890 Neighboring gene STARR-positive B cell enhancer ABC_E1683 Neighboring gene RNA polymerase II associated protein 2 Neighboring gene RIKEN cDNA A930041C12 gene Neighboring gene Gfi1 +35 kb enhancer Neighboring gene RIKEN cDNA 4930428O21 gene Neighboring gene +19.5 kb enhancer downstream of Gfi1

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. The conserved XPF:ERCC1-like Zip2:Spo16 complex controls meiotic crossover formation through structure-specific DNA binding. Arora K, et al. Nucleic Acids Res, 2019 Mar 18. PMID 30566683, Free PMC Article
  2. SPO16 binds SHOC1 to promote homologous recombination and crossing-over in meiotic prophase I. Zhang Q, et al. Sci Adv, 2019 Jan. PMID 30746471, Free PMC Article
  3. SCRE serves as a unique synaptonemal complex fastener and is essential for progression of meiosis prophase I in mice. Liu H, et al. Nucleic Acids Res, 2019 Jun 20. PMID 30949703, Free PMC Article
  4. 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
  5. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073

See all (13) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. This paper reported the function of this gene in meiotic recombination.
    Title: SPO16 binds SHOC1 to promote homologous recombination and crossing-over in meiotic prophase I.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (1) 
  • Endonuclease-mediated (2)  1 citation

General gene information

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Markers

Potential readthrough

Included gene: Btbd8

Homology

Clone Names

  • MGC117884

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within meiotic cell cycle IEA
Inferred from Electronic Annotation
more info
  
involved_in reciprocal meiotic recombination IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in reciprocal meiotic recombination IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in synaptonemal complex assembly IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in synaptonemal complex assembly IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
is_active_in chromosome IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in chromosome IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
protein SPO16 homolog
Names
synaptonemal complex reinforcing element
uncharacterized protein C1orf146 homolog

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_175241.2 → NP_780450.2  protein SPO16 homolog isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) has an alternate 3' sequence, as compared to variant 1. The resulting isoform (2) is shorter and has a different C-terminus, as compared to isoform 1.
    Source sequence(s)
    AC134411
    Consensus CDS
    CCDS51586.2
    UniProtKB/TrEMBL
    A0A5F8MPD9, E3W998
    Related
    ENSMUSP00000158924.2, ENSMUST00000238787.2
    Conserved Domains (1) summary
    pfam15162
    Location:10 → 171
    DUF4580; Domain of unknown function (DUF4580)

  2. NM_182745.3 → NP_877422.2  protein SPO16 homolog isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    AC134411
    Consensus CDS
    CCDS19504.2
    UniProtKB/Swiss-Prot
    G3X9D1, Q3KQP7, Q8CF32
    UniProtKB/TrEMBL
    A0A803Z0B9
    Related
    ENSMUSP00000058373.9, ENSMUST00000058921.15
    Conserved Domains (1) summary
    pfam15162
    Location:10 → 171
    DUF4580; Domain of unknown function (DUF4580)

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
    107682586..107699415
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q3KQP7.3 GenPept UniProtKB/Swiss-Prot:Q3KQP7

Gene LinkOut

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