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Spo11 SPO11 initiator of meiotic double stranded breaks [ Mus musculus (house mouse) ]

Gene ID: 26972, updated on 8-Feb-2024

Summary

Official Symbol
Spo11provided by MGI
Official Full Name
SPO11 initiator of meiotic double stranded breaksprovided by MGI
Primary source
MGI:MGI:1349669
See related
Ensembl:ENSMUSG00000005883 AllianceGenome:MGI:1349669
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
Spo11a; Spo11b
Summary
Predicted to enable DNA binding activity. Acts upstream of or within several processes, including germ cell development; meiosis I; and ovarian follicle development. Located in chromosome, telomeric region. Is expressed in several structures, including gonad; hemolymphoid system gland; liver; oral epithelium; and skin. Orthologous to human SPO11 (SPO11 initiator of meiotic double stranded breaks). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in thymus adult (RPKM 21.9) and testis adult (RPKM 15.7) See more
Orthologs
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Genomic context

See Spo11 in Genome Data Viewer
Location:
2 H3; 2 95.64 cM
Exon count:
14
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (172819172..172835369)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (172977379..172993576)

Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 1700055K11 gene Neighboring gene predicted gene, 36254 Neighboring gene VISTA enhancer mm75 Neighboring gene STARR-seq mESC enhancer starr_06603 Neighboring gene STARR-seq mESC enhancer starr_06604 Neighboring gene bone morphogenetic protein 7 Neighboring gene enhancer in intron 1 of Bmp7 Neighboring gene predicted gene, 40010 Neighboring gene STARR-positive B cell enhancer ABC_E4526 Neighboring gene predicted gene, 52538 Neighboring gene STARR-positive B cell enhancer ABC_E6029 Neighboring gene STARR-seq mESC enhancer starr_06607 Neighboring gene ribonucleic acid export 1 Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:172852363-172852564 Neighboring gene RNA binding motif protein 38

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
 
enables DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables DNA binding IEA
Inferred from Electronic Annotation
more info
 
enables DNA topoisomerase activity IEA
Inferred from Electronic Annotation
more info
 
enables DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) activity IEA
Inferred from Electronic Annotation
more info
 
enables catalytic activity IEA
Inferred from Electronic Annotation
more info
 
enables isomerase activity IEA
Inferred from Electronic Annotation
more info
 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in DNA metabolic process IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within double-strand break repair involved in meiotic recombination IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within homologous chromosome pairing at meiosis IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within leptotene IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within male meiosis I IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in meiotic DNA double-strand break formation IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in meiotic DNA double-strand break formation IEA
Inferred from Electronic Annotation
more info
 
involved_in meiotic DNA double-strand break processing IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within meiotic cell cycle IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within meiotic telomere clustering IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within oogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within ovarian follicle development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within protein localization to chromosome IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in reciprocal meiotic recombination IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within reciprocal meiotic recombination IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within spermatid development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within synaptonemal complex assembly IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within synaptonemal complex assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
located_in chromosome IEA
Inferred from Electronic Annotation
more info
 
located_in chromosome, telomeric region IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in nuclear chromosome IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in nucleoplasm TAS
Traceable Author Statement
more info
 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
meiotic recombination protein SPO11
Names
SPO11 meiotic protein covalently bound to DSB homolog
sporulation protein, meiosis-specific, SPO11 homolog (S. cervisiae)
NP_001077428.1
NP_001077429.1
NP_001292363.1
NP_001399399.1
NP_036176.1
XP_006499680.1
XP_006499681.1
XP_006499682.1
XP_006499683.1
XP_006499685.1
XP_036018140.1
XP_036018141.1

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.

mRNA and Protein(s)

  1. NM_001083959.2NP_001077428.1  meiotic recombination protein SPO11 isoform c

    See identical proteins and their annotated locations for NP_001077428.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks an alternate in-frame exon in the 5' coding region and uses an alternate in-frame splice site in an internal exon compared to variant 1. The encoded isoform (c) is shorter than isoform a.
    Source sequence(s)
    AL928599, AL929140
    Consensus CDS
    CCDS50811.1
    UniProtKB/Swiss-Prot
    Q9WTK8
    Related
    ENSMUSP00000104754.4, ENSMUST00000109126.5
    Conserved Domains (3) summary
    cd00223
    Location:193355
    TOPRIM_TopoIIB_SPO; TOPRIM_TopoIIB_SPO: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IIB family of DNA topoisomerases and Spo11. This subgroup contains proteins similar to Sulfolobus shibatae topoisomerase VI (TopoVI) ...
    pfam03533
    Location:243
    SPO11_like; SPO11 homologue
    pfam04406
    Location:69145
    TP6A_N; Type IIB DNA topoisomerase
  2. NM_001083960.2NP_001077429.1  meiotic recombination protein SPO11 isoform b

    See identical proteins and their annotated locations for NP_001077429.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon in the 5' coding region compared to variant 1. The encoded isoform (b) is shorter than isoform a.
    Source sequence(s)
    AL928599, AL929140
    Consensus CDS
    CCDS50812.1
    UniProtKB/Swiss-Prot
    Q9WTK8
    Related
    ENSMUSP00000104753.2, ENSMUST00000109125.8
    Conserved Domains (3) summary
    cd00223
    Location:180342
    TOPRIM_TopoIIB_SPO; TOPRIM_TopoIIB_SPO: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IIB family of DNA topoisomerases and Spo11. This subgroup contains proteins similar to Sulfolobus shibatae topoisomerase VI (TopoVI) ...
    pfam03533
    Location:243
    SPO11_like; SPO11 homologue
    pfam04406
    Location:69132
    TP6A_N; Type IIB DNA topoisomerase
  3. NM_001305434.2NP_001292363.1  meiotic recombination protein SPO11 isoform d

    See identical proteins and their annotated locations for NP_001292363.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) lacks an alternate in-frame exon in the 5' coding region and uses an alternate in-frame splice site at an internal exon compared to variant 1. It encodes isoform d, which is shorter than isoform a.
    Source sequence(s)
    AL928599, AL929140
    UniProtKB/Swiss-Prot
    Q9WTK8
    Conserved Domains (3) summary
    cd00223
    Location:176338
    TOPRIM_TopoIIB_SPO; TOPRIM_TopoIIB_SPO: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IIB family of DNA topoisomerases and Spo11. This subgroup contains proteins similar to Sulfolobus shibatae topoisomerase VI (TopoVI) ...
    pfam03533
    Location:243
    SPO11_like; SPO11 homologue
    pfam04406
    Location:69132
    TP6A_N; Type IIB DNA topoisomerase
  4. NM_001412470.1NP_001399399.1  meiotic recombination protein SPO11 isoform e

    Status: VALIDATED

    Source sequence(s)
    AL928599, AL929140
  5. NM_012046.3NP_036176.1  meiotic recombination protein SPO11 isoform a

    See identical proteins and their annotated locations for NP_036176.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a).
    Source sequence(s)
    AL928599, AL929140
    Consensus CDS
    CCDS17137.1
    UniProtKB/Swiss-Prot
    Q8VIH6, Q9QUK2, Q9QY57, Q9QZS1, Q9WTK8
    Related
    ENSMUSP00000059056.10, ENSMUST00000050442.15
    Conserved Domains (4) summary
    cd00223
    Location:218380
    TOPRIM_TopoIIB_SPO; TOPRIM_TopoIIB_SPO: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IIB family of DNA topoisomerases and Spo11. This subgroup contains proteins similar to Sulfolobus shibatae topoisomerase VI (TopoVI) ...
    PRK04342
    Location:42396
    PRK04342; DNA topoisomerase VI subunit A; Provisional
    pfam03533
    Location:244
    SPO11_like; SPO11 homologue
    pfam04406
    Location:107170
    TP6A_N; Type IIB DNA topoisomerase

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_000068.8 Reference GRCm39 C57BL/6J

    Range
    172819172..172835369
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006499620.4XP_006499683.1  meiotic recombination protein SPO11 isoform X4

    Conserved Domains (1) summary
    PRK04342
    Location:16376
    PRK04342; DNA topoisomerase IV subunit A
  2. XM_036162248.1XP_036018141.1  meiotic recombination protein SPO11 isoform X7

    Conserved Domains (1) summary
    cd00223
    Location:34196
    TOPRIM_TopoIIB_SPO; topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IIB family of DNA topoisomerases and Spo11. This subgroup contains proteins similar to Sulfolobus shibatae topoisomerase VI (TopoVI) and Saccharomyces ...
  3. XM_006499618.4XP_006499681.1  meiotic recombination protein SPO11 isoform X2

    Conserved Domains (2) summary
    PRK04342
    Location:42462
    PRK04342; DNA topoisomerase IV subunit A
    pfam03533
    Location:244
    SPO11_like; SPO11 homolog
  4. XM_006499617.4XP_006499680.1  meiotic recombination protein SPO11 isoform X1

    Conserved Domains (2) summary
    PRK04342
    Location:42466
    PRK04342; DNA topoisomerase IV subunit A
    pfam03533
    Location:244
    SPO11_like; SPO11 homolog
  5. XM_006499619.4XP_006499682.1  meiotic recombination protein SPO11 isoform X3

    Conserved Domains (2) summary
    PRK04342
    Location:68428
    PRK04342; DNA topoisomerase IV subunit A
    pfam03533
    Location:243
    SPO11_like; SPO11 homolog
  6. XM_036162247.1XP_036018140.1  meiotic recombination protein SPO11 isoform X6

    Conserved Domains (1) summary
    cd00223
    Location:34266
    TOPRIM_TopoIIB_SPO; topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IIB family of DNA topoisomerases and Spo11. This subgroup contains proteins similar to Sulfolobus shibatae topoisomerase VI (TopoVI) and Saccharomyces ...
  7. XM_006499622.3XP_006499685.1  meiotic recombination protein SPO11 isoform X5

    Conserved Domains (1) summary
    cd00223
    Location:59291
    TOPRIM_TopoIIB_SPO; topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IIB family of DNA topoisomerases and Spo11. This subgroup contains proteins similar to Sulfolobus shibatae topoisomerase VI (TopoVI) and Saccharomyces ...