Topaz1 (testis and ovary specific PAZ domain containing 1) - Rat Genome Database

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Gene: Topaz1 (testis and ovary specific PAZ domain containing 1) Mus musculus
Analyze
Symbol: Topaz1
Name: testis and ovary specific PAZ domain containing 1
RGD ID: 2306857
MGI Page MGI
Description: Acts upstream of or within several processes, including ectopic germ cell programmed cell death; ncRNA transcription; and spermatocyte division. Predicted to be located in cytoplasm. Is expressed in germ cell of testis; ovary; and testis. Orthologous to human TOPAZ1 (testis and ovary specific TOPAZ 1).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 671232; gene model 591, (NCBI); Gm591; Gm847; Gm9524; hypothetical protein LOC671232; predicted gene 847; predicted gene 9524; testis and ovary-specific PAZ domain gene 1; testis- and ovary-specific PAZ domain-containing protein 1; topaz 1; uncharacterized protein LOC671232
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399122,576,264 - 122,631,200 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl9122,576,411 - 122,631,200 (+)EnsemblGRCm39 Ensembl
GRCm389122,747,199 - 122,802,135 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9122,747,346 - 122,802,135 (+)EnsemblGRCm38mm10GRCm38
MGSCv379122,656,464 - 122,711,253 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv369122,680,835 - 122,711,253 (+)NCBIMGSCv36mm8
Celera9123,196,291 - 123,251,031 (+)NCBICelera
Cytogenetic Map9F4NCBI
cM Map973.1NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. Mouse MP Annotation Import Pipeline RGD automated import pipeline
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:10922068   PMID:21873635   PMID:22069478   PMID:26358182   PMID:32325033   PMID:34277642  


Genomics

Comparative Map Data
Topaz1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399122,576,264 - 122,631,200 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl9122,576,411 - 122,631,200 (+)EnsemblGRCm39 Ensembl
GRCm389122,747,199 - 122,802,135 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9122,747,346 - 122,802,135 (+)EnsemblGRCm38mm10GRCm38
MGSCv379122,656,464 - 122,711,253 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv369122,680,835 - 122,711,253 (+)NCBIMGSCv36mm8
Celera9123,196,291 - 123,251,031 (+)NCBICelera
Cytogenetic Map9F4NCBI
cM Map973.1NCBI
TOPAZ1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38344,241,886 - 44,336,689 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl344,241,886 - 44,332,098 (+)EnsemblGRCh38hg38GRCh38
GRCh37344,283,378 - 44,373,590 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36344,258,382 - 44,348,594 (+)NCBINCBI36Build 36hg18NCBI36
Celera344,221,424 - 44,311,638 (+)NCBICelera
Cytogenetic Map3p21.31NCBI
HuRef344,326,973 - 44,417,182 (+)NCBIHuRef
CHM1_1344,233,507 - 44,323,686 (+)NCBICHM1_1
T2T-CHM13v2.0344,257,474 - 44,352,542 (+)NCBIT2T-CHM13v2.0
Topaz1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88131,235,714 - 131,290,359 (+)NCBIGRCr8
mRatBN7.28122,358,243 - 122,412,875 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8122,358,243 - 122,412,875 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx8127,952,043 - 128,007,121 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.08126,150,983 - 126,206,061 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.08123,977,202 - 124,031,791 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.08131,788,816 - 131,843,668 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8131,789,575 - 131,843,713 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08130,944,799 - 130,998,710 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48127,448,509 - 127,502,514 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera8121,473,442 - 121,530,654 (+)NCBICelera
Cytogenetic Map8q32NCBI
Topaz1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542027,048,713 - 27,107,006 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542027,048,650 - 27,106,983 (-)NCBIChiLan1.0ChiLan1.0
TOPAZ1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2244,188,877 - 44,279,430 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1344,193,643 - 44,284,197 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0344,131,729 - 44,221,846 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1345,190,901 - 45,280,601 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl345,190,960 - 45,280,601 (+)Ensemblpanpan1.1panPan2
TOPAZ1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1232,009,526 - 2,086,669 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl232,009,613 - 2,086,697 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha232,044,773 - 2,122,720 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0232,256,165 - 2,334,127 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1232,096,692 - 2,174,636 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0232,221,131 - 2,299,082 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0232,189,445 - 2,267,387 (-)NCBIUU_Cfam_GSD_1.0
Topaz1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118198,785,413 - 198,853,817 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366951,137,867 - 1,206,152 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366951,137,867 - 1,206,152 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TOPAZ1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1327,574,767 - 27,643,980 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11327,574,718 - 27,644,009 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
TOPAZ1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1225,665,735 - 5,757,697 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl225,666,215 - 5,757,697 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666041161,424,967 - 161,523,855 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Topaz1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473076,010,503 - 76,068,979 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473076,011,384 - 76,083,927 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Topaz1
1791 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:13
Count of miRNA genes:13
Interacting mature miRNAs:13
Transcripts:ENSMUST00000178679
Prediction methods:Miranda, Rnahybrid
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10412242Alpq8_malcohol preference QTL 8 (mouse)Not determined989162124123162124Mouse
1301649Psl1_mpromotion susceptibility QTL 1 (mouse)Not determined989289476123289595Mouse
18182932Metl3_mmetabolite locus 3, N-acetylglutamate (mouse)989440541123440541Mouse
12910770Splic1_mspleen iron content 1 (mouse)991291078124359700Mouse
12910772Lvic6_mliver iron content 6 (mouse)991291078124359700Mouse
12910773Splic3_mspleen iron content 3 (mouse)991291078124359700Mouse
1558767Skmw11_mskeletal muscle weight 11 (mouse)Not determined991518283124359700Mouse
13463474Hbbcq5_mhemoglobin concentration QTL 5 (mouse)991518283124359700Mouse
13463475Hctq7_mhematocrit QTL 7 (mouse)991518283124359700Mouse
13463477Rbc9_mred blood cell count 9 (mouse)991518283124359700Mouse
13463478Mchq18_mmean corpuscular hemoglobin QTL 18 (mouse)991518283124359700Mouse
13463480Mchcq2_mmean corpuscular hemoglobin concentration QTL 2 (mouse)991518283124359700Mouse
12904937Edlmmq9_mextensor digitorum longus muscle mass QTL 9 (mouse)991560372124359700Mouse
12904947Tammq7_mtibialis anterior muscle mass QTL 7 (mouse)991560372124359700Mouse
12904961Gmmq7_mgastrocnemius muscle mass QTL 7 (mouse)991560372124359700Mouse
1301484Bwq6_mbody weight (mouse)Not determined993591658124359700Mouse
1302001Bdln5_mbody length 5 (mouse)Not determined993591658124359700Mouse
14746992Manh67_mmandible shape 67 (mouse)993865836124359700Mouse
11537364Cnes5_mC. neoformans susceptibility locus 5 (mouse)996746658124359700Mouse
1301297Lcho1_mliver cholesterol 1 (mouse)Not determined9100889929124359700Mouse
1357648Obq18_mobesity QTL 18 (mouse)Not determined9101829255124359700Mouse
1357627Tgq2_mtriglyceride QTL 2 (mouse)Not determined9101829255124359700Mouse
10412290Pvacm1l_mplasma vascular cell adhesion molecule 1 levels (mouse)Not determined9103118511124359700Mouse
12879896Berr3_mberghei resistance locus 3 (mouse)9103118511124359700Mouse
1301789Pbwg4_mpostnatal body weight growth 4 (mouse)Not determined9103118511124359700Mouse


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000178679   ⟹   ENSMUSP00000136304
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl9122,576,411 - 122,631,200 (+)Ensembl
GRCm38.p6 Ensembl9122,747,346 - 122,802,135 (+)Ensembl
RefSeq Acc Id: ENSMUST00000213519
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl9122,579,668 - 122,600,387 (+)Ensembl
GRCm38.p6 Ensembl9122,750,603 - 122,771,322 (+)Ensembl
RefSeq Acc Id: NM_001199736   ⟹   NP_001186665
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm399122,576,264 - 122,631,200 (+)NCBI
GRCm389122,747,199 - 122,802,135 (+)NCBI
Celera9123,196,291 - 123,250,970 (+)ENTREZGENE
cM Map9 ENTREZGENE
Sequence:
Protein Sequences
Protein RefSeqs NP_001186665 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein ADK36691 (Get FASTA)   NCBI Sequence Viewer  
  E5FYH1 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000136304
  ENSMUSP00000136304.2
Reference Protein Sequences
RefSeq Acc Id: NP_001186665   ⟸   NM_001199736
- UniProtKB: E5FYH1 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000136304   ⟸   ENSMUST00000178679

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-E5FYH1-F1-model_v2 AlphaFold E5FYH1 1-1653 view protein structure

Promoters
RGD ID:8671304
Promoter ID:EPDNEW_M13682
Type:multiple initiation site
Name:Topaz1_1
Description:Mus musculus testis and ovary specific PAZ domain containing1 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm389122,747,319 - 122,747,379EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:3779933 AgrOrtholog
Ensembl Genes ENSMUSG00000094985 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000178679 ENTREZGENE
  ENSMUST00000178679.3 UniProtKB/Swiss-Prot
InterPro TOPAZ1 UniProtKB/Swiss-Prot
  TOPAZ1_dom UniProtKB/Swiss-Prot
KEGG Report mmu:671232 UniProtKB/Swiss-Prot
MGD MGI:3779933 ENTREZGENE
NCBI Gene 671232 ENTREZGENE
PANTHER PROTEIN TOPAZ1 UniProtKB/Swiss-Prot
  PTHR35671 UniProtKB/Swiss-Prot
Pfam Asp_Glu_race_2 UniProtKB/Swiss-Prot
PhenoGen Topaz1 PhenoGen
UniProt E5FYH1 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-04-21 Topaz1  testis and ovary specific PAZ domain containing 1  Gm847  predicted gene 847  Data merged from RGD:1609387 737654 PROVISIONAL
2016-04-01 Topaz1  testis and ovary specific PAZ domain containing 1  Gm591  gene model 591, (NCBI)  Data merged from RGD:1642248 737654 PROVISIONAL
2012-12-25 Topaz1  testis and ovary specific PAZ domain containing 1  Gm9524  predicted gene 9524  Symbol and/or name change 5135510 APPROVED