SPO11 (SPO11 initiator of meiotic double strand breaks) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: SPO11 (SPO11 initiator of meiotic double strand breaks) Homo sapiens
Analyze
Symbol: SPO11
Name: SPO11 initiator of meiotic double strand breaks
RGD ID: 1315081
HGNC Page HGNC:11250
Description: Predicted to enable DNA binding activity. Predicted to be involved in meiotic DNA double-strand break formation; meiotic DNA double-strand break processing; and reciprocal meiotic recombination. Predicted to act upstream of or within several processes, including germ cell development; meiosis I; and ovarian follicle development. Predicted to be located in chromosome, telomeric region and nucleus. Predicted to be active in nuclear chromosome.
Type: protein-coding
RefSeq Status: REVIEWED
Previously known as: cancer/testis antigen 35; CT35; meiotic recombination protein SPO11; MGC39953; SPATA43; spermatogenesis associated 43; SPO11 initiator of meiotic double stranded breaks; SPO11 meiotic protein covalently bound to DSB; SPO11 meiotic protein covalently bound to DSB homolog; SPO11 meiotic protein covalently bound to DSB-like; spo11 meiotic protein covalently bound to dsb-like (s. cerevisiae); SPO11, initiator of meiotic double stranded breaks; SPO11, meiotic protein covalently bound to DSB-like; TOPOVIA; TOPVIA
RGD Orthologs
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382057,329,803 - 57,343,993 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2057,329,803 - 57,343,994 (+)EnsemblGRCh38hg38GRCh38
GRCh372055,904,859 - 55,919,049 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362055,338,238 - 55,352,456 (+)NCBINCBI36Build 36hg18NCBI36
Build 342055,338,237 - 55,352,455NCBI
Celera2052,645,068 - 52,659,286 (+)NCBICelera
Cytogenetic Map20q13.31NCBI
HuRef2052,686,790 - 52,701,008 (+)NCBIHuRef
CHM1_12055,805,942 - 55,820,160 (+)NCBICHM1_1
T2T-CHM13v2.02059,107,550 - 59,121,740 (+)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Human Phenotype
References

References - curated
# Reference Title Reference Citation
1. GOAs Human GO annotations GOA_HUMAN data from the GO Consortium
2. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10534401   PMID:10622720   PMID:11106738   PMID:11780052   PMID:12477932   PMID:15489334   PMID:16169419   PMID:18166824   PMID:20378615   PMID:20379614   PMID:21556891   PMID:21873635  
PMID:25005169   PMID:26663067   PMID:26917763   PMID:26995551   PMID:28050928   PMID:29509190   PMID:32296183   PMID:33658710   PMID:33961781  


Genomics

Comparative Map Data
SPO11
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382057,329,803 - 57,343,993 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2057,329,803 - 57,343,994 (+)EnsemblGRCh38hg38GRCh38
GRCh372055,904,859 - 55,919,049 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362055,338,238 - 55,352,456 (+)NCBINCBI36Build 36hg18NCBI36
Build 342055,338,237 - 55,352,455NCBI
Celera2052,645,068 - 52,659,286 (+)NCBICelera
Cytogenetic Map20q13.31NCBI
HuRef2052,686,790 - 52,701,008 (+)NCBIHuRef
CHM1_12055,805,942 - 55,820,160 (+)NCBICHM1_1
T2T-CHM13v2.02059,107,550 - 59,121,740 (+)NCBIT2T-CHM13v2.0
Spo11
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392172,819,172 - 172,835,369 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2172,819,493 - 172,835,369 (+)EnsemblGRCm39 Ensembl
GRCm382172,977,379 - 172,993,576 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2172,977,700 - 172,993,576 (+)EnsemblGRCm38mm10GRCm38
MGSCv372172,805,343 - 172,819,077 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362172,622,784 - 172,636,504 (+)NCBIMGSCv36mm8
MGSCv362174,209,775 - 174,223,792 (+)NCBIMGSCv36mm8
Celera2178,918,642 - 178,957,539 (+)NCBICelera
Cytogenetic Map2H3NCBI
cM Map295.64NCBI
Spo11
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83182,173,615 - 182,189,273 (+)NCBIGRCr8
mRatBN7.23161,755,299 - 161,770,930 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3161,757,519 - 161,770,925 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3165,571,645 - 165,582,906 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03174,070,591 - 174,081,852 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03171,812,404 - 171,823,665 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03170,991,573 - 171,008,226 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3170,994,038 - 171,013,185 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03177,058,150 - 177,081,041 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43163,842,817 - 163,854,067 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.13163,746,748 - 163,759,641 (+)NCBI
Celera3160,953,190 - 160,964,440 (+)NCBICelera
Cytogenetic Map3q42NCBI
Spo11
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554452,088,144 - 2,103,385 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554452,088,144 - 2,103,385 (-)NCBIChiLan1.0ChiLan1.0
SPO11
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22163,080,959 - 63,095,174 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12063,074,078 - 63,088,293 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02053,669,128 - 53,684,328 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12054,948,664 - 54,962,908 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2054,948,661 - 54,963,384 (+)Ensemblpanpan1.1panPan2
SPO11
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12442,345,595 - 42,360,851 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2442,345,547 - 42,384,481 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2441,593,229 - 41,608,456 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02443,211,094 - 43,226,379 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2443,211,048 - 43,250,014 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12442,296,075 - 42,311,271 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02442,435,814 - 42,451,039 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02443,093,993 - 43,109,232 (+)NCBIUU_Cfam_GSD_1.0
Spo11
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640183,108,577 - 183,122,976 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936530183,271 - 197,335 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936530183,271 - 197,549 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SPO11
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1757,730,675 - 57,745,875 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11757,730,676 - 57,745,875 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21764,894,962 - 64,910,090 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SPO11
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.126,778,442 - 6,792,736 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl26,778,985 - 6,792,643 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605054,840,590 - 54,854,921 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Spo11
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474123,784,298 - 23,800,168 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474123,784,362 - 23,800,127 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in SPO11
17 total Variants

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 20q13.31(chr20:56929154-57422442)x3 copy number gain See cases [RCV000052794] Chr20:56929154..57422442 [GRCh38]
Chr20:55504210..55997498 [GRCh37]
Chr20:54937617..55430904 [NCBI36]
Chr20:20q13.31		 uncertain significance
GRCh38/hg38 20q13.12-13.33(chr20:44787704-64277321)x3 copy number gain See cases [RCV000053035] Chr20:44787704..64277321 [GRCh38]
Chr20:43416345..62908674 [GRCh37]
Chr20:42849759..62379118 [NCBI36]
Chr20:20q13.12-13.33		 pathogenic
GRCh38/hg38 20q13.31(chr20:57137573-57378043)x1 copy number loss See cases [RCV000053851] Chr20:57137573..57378043 [GRCh38]
Chr20:55712629..55953099 [GRCh37]
Chr20:55146036..55386506 [NCBI36]
Chr20:20q13.31		 uncertain significance
NM_012444.2(SPO11):c.262G>A (p.Gly88Ser) single nucleotide variant Malignant melanoma [RCV000072713] Chr20:57333204 [GRCh38]
Chr20:55908260 [GRCh37]
Chr20:55341667 [NCBI36]
Chr20:20q13.31		 not provided
GRCh38/hg38 20p13-q13.33(chr20:99557-64277321)x3 copy number gain See cases [RCV000135859] Chr20:99557..64277321 [GRCh38]
Chr20:80198..62908674 [GRCh37]
Chr20:28198..62379118 [NCBI36]
Chr20:20p13-q13.33		 pathogenic
GRCh38/hg38 20q13.2-13.33(chr20:55630597-60941207)x3 copy number gain See cases [RCV000135622] Chr20:55630597..60941207 [GRCh38]
Chr20:54220678..59516263 [GRCh37]
Chr20:53639062..58949658 [NCBI36]
Chr20:20q13.2-13.33		 likely pathogenic
GRCh38/hg38 20q13.2-13.33(chr20:56198032-64277321)x3 copy number gain See cases [RCV000138035] Chr20:56198032..64277321 [GRCh38]
Chr20:54773088..62908674 [GRCh37]
Chr20:54206495..62379118 [NCBI36]
Chr20:20q13.2-13.33		 pathogenic
GRCh38/hg38 20q13.31-13.33(chr20:57229415-64273089)x3 copy number gain See cases [RCV000141347] Chr20:57229415..64273089 [GRCh38]
Chr20:55804471..62904442 [GRCh37]
Chr20:55237878..62374886 [NCBI36]
Chr20:20q13.31-13.33		 pathogenic
GRCh38/hg38 20q13.2-13.32(chr20:54594888-58190583)x1 copy number loss See cases [RCV000141033] Chr20:54594888..58190583 [GRCh38]
Chr20:53211427..56765639 [GRCh37]
Chr20:52644834..56199045 [NCBI36]
Chr20:20q13.2-13.32		 pathogenic
GRCh38/hg38 20q13.2-13.33(chr20:53236165-64284202)x3 copy number gain See cases [RCV000143584] Chr20:53236165..64284202 [GRCh38]
Chr20:51852704..62915555 [GRCh37]
Chr20:51286111..62385999 [NCBI36]
Chr20:20q13.2-13.33		 likely pathogenic
GRCh37/hg19 20q13.2-13.33(chr20:51542616-62915555)x3 copy number gain See cases [RCV000511980] Chr20:51542616..62915555 [GRCh37]
Chr20:20q13.2-13.33		 likely pathogenic
GRCh37/hg19 20p13-q13.33(chr20:61569-62915555)x3 copy number gain See cases [RCV000510832] Chr20:61569..62915555 [GRCh37]
Chr20:20p13-q13.33		 pathogenic
GRCh37/hg19 20p13-q13.33(chr20:61569-62915555) copy number gain See cases [RCV000512450] Chr20:61569..62915555 [GRCh37]
Chr20:20p13-q13.33		 pathogenic
GRCh37/hg19 20p13-q13.33(chr20:63244-62961294)x3 copy number gain not provided [RCV000741059] Chr20:63244..62961294 [GRCh37]
Chr20:20p13-q13.33		 pathogenic
GRCh37/hg19 20p13-q13.33(chr20:63244-62912463)x3 copy number gain not provided [RCV000741057] Chr20:63244..62912463 [GRCh37]
Chr20:20p13-q13.33		 pathogenic
GRCh37/hg19 20p13-q13.33(chr20:63244-62948788)x3 copy number gain not provided [RCV000741058] Chr20:63244..62948788 [GRCh37]
Chr20:20p13-q13.33		 pathogenic
NM_012444.3(SPO11):c.106A>G (p.Thr36Ala) single nucleotide variant not provided [RCV000967561] Chr20:57329973 [GRCh38]
Chr20:55905029 [GRCh37]
Chr20:20q13.31		 benign
GRCh37/hg19 20q13.2-13.33(chr20:54143747-62194881) copy number gain not provided [RCV000767669] Chr20:54143747..62194881 [GRCh37]
Chr20:20q13.2-13.33		 pathogenic
GRCh37/hg19 20q13.31-13.33(chr20:55743522-62032989)x3 copy number gain not provided [RCV001007097] Chr20:55743522..62032989 [GRCh37]
Chr20:20q13.31-13.33		 pathogenic
NM_012444.3(SPO11):c.744G>A (p.Thr248=) single nucleotide variant Non-obstructive azoospermia [RCV001648498] Chr20:57335907 [GRCh38]
Chr20:55910963 [GRCh37]
Chr20:20q13.31		 likely pathogenic
GRCh37/hg19 20q13.2-13.33(chr20:51799648-62916626)x3 copy number gain not provided [RCV001537917] Chr20:51799648..62916626 [GRCh37]
Chr20:20q13.2-13.33		 pathogenic
GRCh37/hg19 20q13.31-13.32(chr20:55292205-57866365) copy number loss not specified [RCV002052712] Chr20:55292205..57866365 [GRCh37]
Chr20:20q13.31-13.32		 pathogenic
NC_000020.10:g.(?_54823900)_(57899514_?)del deletion not provided [RCV001900543] Chr20:54823900..57899514 [GRCh37]
Chr20:20q13.2-13.32		 uncertain significance
NM_012444.3(SPO11):c.448G>A (p.Val150Ile) single nucleotide variant not provided [RCV004695671]|not specified [RCV004202500] Chr20:57334033 [GRCh38]
Chr20:55909089 [GRCh37]
Chr20:20q13.31		 uncertain significance
NM_012444.3(SPO11):c.101C>A (p.Pro34His) single nucleotide variant not specified [RCV004130071] Chr20:57329968 [GRCh38]
Chr20:55905024 [GRCh37]
Chr20:20q13.31		 uncertain significance
NM_012444.3(SPO11):c.407T>C (p.Ile136Thr) single nucleotide variant not specified [RCV004095234] Chr20:57333992 [GRCh38]
Chr20:55909048 [GRCh37]
Chr20:20q13.31		 uncertain significance
NM_012444.3(SPO11):c.421A>G (p.Ser141Gly) single nucleotide variant not specified [RCV004157141] Chr20:57334006 [GRCh38]
Chr20:55909062 [GRCh37]
Chr20:20q13.31		 uncertain significance
NM_012444.3(SPO11):c.644C>T (p.Thr215Ile) single nucleotide variant not specified [RCV004181955] Chr20:57335807 [GRCh38]
Chr20:55910863 [GRCh37]
Chr20:20q13.31		 uncertain significance
NM_012444.3(SPO11):c.770C>A (p.Thr257Lys) single nucleotide variant not specified [RCV004217317] Chr20:57338301 [GRCh38]
Chr20:55913357 [GRCh37]
Chr20:20q13.31		 uncertain significance
NM_012444.3(SPO11):c.1048T>C (p.Cys350Arg) single nucleotide variant not specified [RCV004269586] Chr20:57342817 [GRCh38]
Chr20:55917873 [GRCh37]
Chr20:20q13.31		 uncertain significance
NM_012444.3(SPO11):c.410A>G (p.Tyr137Cys) single nucleotide variant not specified [RCV004325665] Chr20:57333995 [GRCh38]
Chr20:55909051 [GRCh37]
Chr20:20q13.31		 uncertain significance
NM_012444.3(SPO11):c.592G>A (p.Ala198Thr) single nucleotide variant not specified [RCV004264090] Chr20:57334831 [GRCh38]
Chr20:55909887 [GRCh37]
Chr20:20q13.31		 uncertain significance
GRCh37/hg19 20q13.2-13.33(chr20:52773668-62965020)x3 copy number gain See cases [RCV003329549] Chr20:52773668..62965020 [GRCh37]
Chr20:20q13.2-13.33		 uncertain significance
NM_012444.3(SPO11):c.40G>C (p.Asp14His) single nucleotide variant not specified [RCV004358361] Chr20:57329907 [GRCh38]
Chr20:55904963 [GRCh37]
Chr20:20q13.31		 uncertain significance
NM_012444.3(SPO11):c.107C>T (p.Thr36Ile) single nucleotide variant not specified [RCV004359819] Chr20:57329974 [GRCh38]
Chr20:55905030 [GRCh37]
Chr20:20q13.31		 uncertain significance
NM_012444.3(SPO11):c.165C>G (p.Ile55Met) single nucleotide variant not specified [RCV004465135] Chr20:57331866 [GRCh38]
Chr20:55906922 [GRCh37]
Chr20:20q13.31		 uncertain significance
GRCh38/hg38 20q13.13-13.33(chr20:50805746-64334135) copy number gain 20q13.13qter duplication [RCV004555205] Chr20:50805746..64334135 [GRCh38]
Chr20:20q13.13-13.33		 pathogenic
NM_012444.3(SPO11):c.190A>G (p.Arg64Gly) single nucleotide variant not specified [RCV004465136] Chr20:57331891 [GRCh38]
Chr20:55906947 [GRCh37]
Chr20:20q13.31		 uncertain significance
NM_012444.3(SPO11):c.107C>A (p.Thr36Asn) single nucleotide variant not specified [RCV004673136] Chr20:57329974 [GRCh38]
Chr20:55905030 [GRCh37]
Chr20:20q13.31		 uncertain significance
NM_012444.3(SPO11):c.161T>C (p.Ile54Thr) single nucleotide variant not specified [RCV004673137] Chr20:57331862 [GRCh38]
Chr20:55906918 [GRCh37]
Chr20:20q13.31		 uncertain significance
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:913
Count of miRNA genes:338
Interacting mature miRNAs:361
Transcripts:ENST00000345868, ENST00000371260, ENST00000371263, ENST00000418127, ENST00000494972
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCh38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2292864PRSTS43_HProstate tumor susceptibility QTL 43 (human)0.620.05Prostate tumor susceptibility204730303964444167Human
1300007BP29_HBlood pressure QTL 29 (human)Blood pressurehypertension susceptibility203653600562536005Human
406984902GWAS633878_Hhemoglobin measurement QTL GWAS633878 (human)3e-10hemoglobin measurementhemoglobin measurement (CMO:0000508)205734387857343879Human
406980198GWAS629174_Hhematocrit QTL GWAS629174 (human)1e-12hematocrithematocrit (CMO:0000037)205734387857343879Human

Markers in Region
SPO11_9386  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh372055,918,452 - 55,919,209UniSTSGRCh37
Build 362055,351,859 - 55,352,616RGDNCBI36
Celera2052,658,689 - 52,659,446RGD
HuRef2052,700,411 - 52,701,168UniSTS


Expression

RNA-SEQ Expression

adipose tissue
alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
entire extraembryonic component
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
sensory system
89 134 172 92 381 180 207 1 32 141 23 172 389 399 297 50 505 157 10

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_012444 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_198265 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_005260379 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_005260380 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_005260381 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_005260382 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_011528756 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_011528757 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_054323300 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_054323301 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_054323302 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_054323303 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_054323304 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_054323305 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AF149310 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF169385 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AL135939 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY957583 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC033591 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH471077 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CP068258 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  MN708963 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  MN708964 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  MN720359 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENST00000345868   ⟹   ENSP00000316034
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl2057,329,813 - 57,343,994 (+)Ensembl
Ensembl Acc Id: ENST00000371260   ⟹   ENSP00000360307
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl2057,329,859 - 57,343,994 (+)Ensembl
Ensembl Acc Id: ENST00000371263   ⟹   ENSP00000360310
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl2057,329,803 - 57,343,993 (+)Ensembl
Ensembl Acc Id: ENST00000418127   ⟹   ENSP00000413185
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl2057,329,934 - 57,339,026 (+)Ensembl
Ensembl Acc Id: ENST00000494972   ⟹   ENSP00000431842
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl2057,334,750 - 57,343,994 (+)Ensembl
RefSeq Acc Id: NM_012444   ⟹   NP_036576
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh382057,329,803 - 57,343,993 (+)NCBI
GRCh372055,904,831 - 55,919,049 (+)RGD
Build 362055,338,238 - 55,352,456 (+)NCBI Archive
Celera2052,645,068 - 52,659,286 (+)RGD
HuRef2052,686,790 - 52,701,008 (+)RGD
CHM1_12055,805,942 - 55,820,160 (+)NCBI
T2T-CHM13v2.02059,107,550 - 59,121,740 (+)NCBI
Sequence:
RefSeq Acc Id: NM_198265   ⟹   NP_937998
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh382057,329,803 - 57,343,993 (+)NCBI
GRCh372055,904,831 - 55,919,049 (+)RGD
Build 362055,338,238 - 55,352,456 (+)NCBI Archive
Celera2052,645,068 - 52,659,286 (+)RGD
HuRef2052,686,790 - 52,701,008 (+)RGD
CHM1_12055,805,942 - 55,820,160 (+)NCBI
T2T-CHM13v2.02059,107,550 - 59,121,740 (+)NCBI
Sequence:
RefSeq Acc Id: XM_005260379   ⟹   XP_005260436
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh382057,329,803 - 57,343,993 (+)NCBI
GRCh372055,904,831 - 55,919,049 (+)NCBI
Sequence:
RefSeq Acc Id: XM_005260380   ⟹   XP_005260437
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh382057,329,803 - 57,343,993 (+)NCBI
GRCh372055,904,831 - 55,919,049 (+)NCBI
Sequence:
RefSeq Acc Id: XM_005260381   ⟹   XP_005260438
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh382057,329,803 - 57,343,993 (+)NCBI
GRCh372055,904,831 - 55,919,049 (+)NCBI
Sequence:
RefSeq Acc Id: XM_005260382   ⟹   XP_005260439
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh382057,329,803 - 57,343,428 (+)NCBI
GRCh372055,904,831 - 55,919,049 (+)NCBI
Sequence:
RefSeq Acc Id: XM_011528756   ⟹   XP_011527058
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh382057,329,803 - 57,343,993 (+)NCBI
Sequence:
RefSeq Acc Id: XM_011528757   ⟹   XP_011527059
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh382057,330,120 - 57,343,993 (+)NCBI
Sequence:
RefSeq Acc Id: XM_054323300   ⟹   XP_054179275
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
T2T-CHM13v2.02059,107,550 - 59,121,740 (+)NCBI
RefSeq Acc Id: XM_054323301   ⟹   XP_054179276
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
T2T-CHM13v2.02059,107,550 - 59,121,740 (+)NCBI
RefSeq Acc Id: XM_054323302   ⟹   XP_054179277
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
T2T-CHM13v2.02059,107,550 - 59,121,740 (+)NCBI
RefSeq Acc Id: XM_054323303   ⟹   XP_054179278
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
T2T-CHM13v2.02059,107,550 - 59,121,740 (+)NCBI
RefSeq Acc Id: XM_054323304   ⟹   XP_054179279
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
T2T-CHM13v2.02059,107,867 - 59,121,740 (+)NCBI
RefSeq Acc Id: XM_054323305   ⟹   XP_054179280
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
T2T-CHM13v2.02059,107,550 - 59,121,175 (+)NCBI
RefSeq Acc Id: NP_036576   ⟸   NM_012444
- Peptide Label: isoform a
- UniProtKB: Q9NQM7 (UniProtKB/Swiss-Prot),   Q8N4V0 (UniProtKB/Swiss-Prot),   Q5TCI1 (UniProtKB/Swiss-Prot),   Q9NQM8 (UniProtKB/Swiss-Prot),   Q9Y5K1 (UniProtKB/Swiss-Prot),   Q5TCH7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_937998   ⟸   NM_198265
- Peptide Label: isoform b
- UniProtKB: Q5TCH7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005260436   ⟸   XM_005260379
- Peptide Label: isoform X1
- UniProtKB: Q5TCH7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005260437   ⟸   XM_005260380
- Peptide Label: isoform X2
- UniProtKB: Q5TCH7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005260438   ⟸   XM_005260381
- Peptide Label: isoform X3
- UniProtKB: Q5TCH7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005260439   ⟸   XM_005260382
- Peptide Label: isoform X6
- UniProtKB: Q5TCH6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_011527058   ⟸   XM_011528756
- Peptide Label: isoform X4
- UniProtKB: Q5TCH7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_011527059   ⟸   XM_011528757
- Peptide Label: isoform X5
- UniProtKB: Q5TCH7 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSP00000316034   ⟸   ENST00000345868
Ensembl Acc Id: ENSP00000360307   ⟸   ENST00000371260
Ensembl Acc Id: ENSP00000360310   ⟸   ENST00000371263
Ensembl Acc Id: ENSP00000431842   ⟸   ENST00000494972
Ensembl Acc Id: ENSP00000413185   ⟸   ENST00000418127
RefSeq Acc Id: XP_054179275   ⟸   XM_054323300
- Peptide Label: isoform X1
RefSeq Acc Id: XP_054179276   ⟸   XM_054323301
- Peptide Label: isoform X2
RefSeq Acc Id: XP_054179277   ⟸   XM_054323302
- Peptide Label: isoform X3
RefSeq Acc Id: XP_054179278   ⟸   XM_054323303
- Peptide Label: isoform X4
RefSeq Acc Id: XP_054179280   ⟸   XM_054323305
- Peptide Label: isoform X6
RefSeq Acc Id: XP_054179279   ⟸   XM_054323304
- Peptide Label: isoform X5
Protein Domains
Meiosis-specific protein Spo11   Spo11/DNA topoisomerase VI subunit A N-terminal   Topo IIA-type catalytic   Topoisomerase 6 subunit A/Spo11 TOPRIM

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9Y5K1-F1-model_v2 AlphaFold Q9Y5K1 1-396 view protein structure

Promoters
RGD ID:6798655
Promoter ID:HG_KWN:39929
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:K562
Transcripts:ENST00000371258,   ENST00000371260,   OTTHUMT00000079836,   OTTHUMT00000079837,   OTTHUMT00000079839
Position:
Human AssemblyChrPosition (strand)Source
Build 362055,337,981 - 55,338,481 (+)MPROMDB
RGD ID:13602182
Promoter ID:EPDNEW_H27275
Type:initiation region
Name:SPO11_1
Description:SPO11, initiator of meiotic double stranded breaks
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh382057,329,807 - 57,329,867EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:11250 AgrOrtholog
COSMIC SPO11 COSMIC
Ensembl Genes ENSG00000054796 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENST00000345868 ENTREZGENE
  ENST00000345868.8 UniProtKB/Swiss-Prot
  ENST00000371260.8 UniProtKB/TrEMBL
  ENST00000371263 ENTREZGENE
  ENST00000371263.8 UniProtKB/Swiss-Prot
  ENST00000418127 ENTREZGENE
  ENST00000418127.5 UniProtKB/TrEMBL
  ENST00000494972.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.10.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.40.1360.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
GTEx ENSG00000054796 GTEx
HGNC ID HGNC:11250 ENTREZGENE
Human Proteome Map SPO11 Human Proteome Map
InterPro Meiosis_Spo11 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Meiotic_Spo11 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Spo11/TopoVI_A UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Spo11/TopoVI_A_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Spo11/TopoVI_A_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TOPRIM_Topo6A/Spo11 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WH-like_DNA-bd_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report hsa:23626 UniProtKB/Swiss-Prot
NCBI Gene 23626 ENTREZGENE
OMIM 605114 OMIM
PANTHER MEIOTIC RECOMBINATION PROTEIN SPO11 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR10848 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam SPO11_like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TOP6A-Spo11_Toprim UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TP6A_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB PA36080 PharmGKB
PRINTS SPO11HOMOLOG UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TOP6AFAMILY UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE TOPO_IIB UniProtKB/Swiss-Prot
Superfamily-SCOP SSF56726 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt H0YCK9_HUMAN UniProtKB/TrEMBL
  Q5TCH6 ENTREZGENE, UniProtKB/TrEMBL
  Q5TCH7 ENTREZGENE, UniProtKB/TrEMBL
  Q5TCI1 ENTREZGENE
  Q8N4V0 ENTREZGENE
  Q9NQM7 ENTREZGENE
  Q9NQM8 ENTREZGENE
  Q9Y5K1 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q5TCI1 UniProtKB/Swiss-Prot
  Q8N4V0 UniProtKB/Swiss-Prot
  Q9NQM7 UniProtKB/Swiss-Prot
  Q9NQM8 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-05-22 SPO11  SPO11 initiator of meiotic double strand breaks  SPO11  SPO11 initiator of meiotic double stranded breaks  Symbol and/or name change 19259463 PROVISIONAL
2019-01-29 SPO11  SPO11 initiator of meiotic double stranded breaks  SPO11  SPO11, initiator of meiotic double stranded breaks  Symbol and/or name change 5135510 APPROVED
2016-05-03 SPO11  SPO11, initiator of meiotic double stranded breaks  SPO11  SPO11 meiotic protein covalently bound to DSB  Symbol and/or name change 5135510 APPROVED
2013-06-11 SPO11  SPO11 meiotic protein covalently bound to DSB  SPO11  SPO11 meiotic protein covalently bound to DSB homolog (S. cerevisiae)  Symbol and/or name change 5135510 APPROVED