Spata3 (spermatogenesis associated 3) - Rat Genome Database

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Gene: Spata3 (spermatogenesis associated 3) Rattus norvegicus
Analyze
Symbol: Spata3
Name: spermatogenesis associated 3
RGD ID: 1308164
Description: Orthologous to human SPATA3 (spermatogenesis associated 3); INTERACTS WITH 1,2-dimethylhydrazine; 2,3,7,8-Tetrachlorodibenzofuran; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC363270; spermatogenesis-associated protein 3
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8994,107,832 - 94,120,280 (+)NCBIGRCr8
mRatBN7.2986,660,352 - 86,672,272 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl986,659,784 - 86,672,272 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx995,078,332 - 95,090,262 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.09100,206,835 - 100,218,765 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0998,587,532 - 98,599,654 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0993,029,766 - 93,042,631 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl993,030,714 - 93,042,631 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0992,760,028 - 92,771,945 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4984,726,151 - 84,738,071 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1984,913,079 - 84,917,571 (+)NCBI
Celera984,081,552 - 84,093,472 (+)NCBICelera
Cytogenetic Map9q35NCBI
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

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Spata3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8994,107,832 - 94,120,280 (+)NCBIGRCr8
mRatBN7.2986,660,352 - 86,672,272 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl986,659,784 - 86,672,272 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx995,078,332 - 95,090,262 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.09100,206,835 - 100,218,765 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0998,587,532 - 98,599,654 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0993,029,766 - 93,042,631 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl993,030,714 - 93,042,631 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0992,760,028 - 92,771,945 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4984,726,151 - 84,738,071 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1984,913,079 - 84,917,571 (+)NCBI
Celera984,081,552 - 84,093,472 (+)NCBICelera
Cytogenetic Map9q35NCBI
SPATA3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382230,996,121 - 231,020,109 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2230,990,324 - 231,025,055 (+)EnsemblGRCh38hg38GRCh38
GRCh372231,860,836 - 231,872,755 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362231,569,086 - 231,580,243 (+)NCBINCBI36Build 36hg18NCBI36
Build 342231,686,345 - 231,715,275NCBI
Celera2225,637,075 - 225,647,511 (+)NCBICelera
Cytogenetic Map2q37.1NCBI
HuRef2223,702,987 - 223,710,981 (+)NCBIHuRef
CHM1_12231,866,603 - 231,877,816 (+)NCBICHM1_1
T2T-CHM13v2.02231,479,391 - 231,504,484 (+)NCBIT2T-CHM13v2.0
Spata3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39185,945,728 - 85,957,683 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl185,944,538 - 85,957,680 (+)EnsemblGRCm39 Ensembl
GRCm38186,018,031 - 86,029,961 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl186,016,816 - 86,029,958 (+)EnsemblGRCm38mm10GRCm38
MGSCv37187,918,517 - 87,926,533 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36187,852,884 - 87,861,129 (+)NCBIMGSCv36mm8
Celera188,987,260 - 88,995,253 (+)NCBICelera
Cytogenetic Map1C5NCBI
cM Map143.94NCBI
Spata3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554534,435,819 - 4,453,138 (-)NCBIChiLan1.0ChiLan1.0
SPATA3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v213133,618,303 - 133,639,556 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12B133,633,268 - 133,649,342 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02B118,246,905 - 118,265,322 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12B237,042,156 - 237,053,447 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B237,042,156 - 237,053,441 (+)Ensemblpanpan1.1panPan2
SPATA3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12542,934,828 - 42,953,515 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2542,939,335 - 42,953,590 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2543,495,172 - 43,513,871 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02543,191,773 - 43,210,506 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2543,196,309 - 43,210,486 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12543,120,278 - 43,139,020 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02542,963,182 - 42,981,897 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02543,118,817 - 43,137,534 (+)NCBIUU_Cfam_GSD_1.0
LOC101976447
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303185,127,728 - 185,141,997 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365255,801,036 - 5,807,450 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365255,801,036 - 5,807,450 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SPATA3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl15131,743,332 - 131,752,395 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.115131,742,405 - 131,762,293 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.215145,420,075 - 145,435,947 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SPATA3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.110117,028,607 - 117,061,952 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl10117,028,843 - 117,035,684 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604082,402,070 - 82,409,881 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Spata3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248434,333,492 - 4,341,109 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Spata3
67 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:59
Count of miRNA genes:53
Interacting mature miRNAs:55
Transcripts:ENSRNOT00000023581
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631656Bp108Blood pressure QTL 1085.970.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94859825193598251Rat
8662828Vetf6Vascular elastic tissue fragility QTL 63.9artery integrity trait (VT:0010639)patent ductus arteriosus score (CMO:0002566)93696235992058970Rat
11353957Bmd92Bone mineral density QTL 920.01tibia mineral mass (VT:1000283)volumetric bone mineral density (CMO:0001553)94611419991114199Rat
724515Uae16Urinary albumin excretion QTL 168urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)958163035100929646Rat
731171Glom6Glomerulus QTL 62.80.0003kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)964573531109573531Rat
724547Cm21Cardiac mass QTL 212.7heart mass (VT:0007028)calculated heart weight (CMO:0000073)979271511102910209Rat
61385Edpm9Estrogen-dependent pituitary mass QTL 93.430.05pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)963869687108869687Rat
2303178Bp334Blood pressure QTL 3343.70.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)97927151191616855Rat
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)925268044114175309Rat
2290450Scl57Serum cholesterol level QTL 574.15blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)93696235995410867Rat
1578760Cm53Cardiac mass QTL 533.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)956771635101771635Rat
11353951Bp394Blood pressure QTL 394arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94464992189649921Rat
10054125Srcrt7Stress Responsive Cort QTL 73.330.0011blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)9187073594Rat
1581580Uae34Urinary albumin excretion QTL 34urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)96207227596470995Rat
1300134Bp185Blood pressure QTL 1853.73arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)961381434104821652Rat
12879506Pur33Proteinuria QTL 33urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)94464992189649921Rat
1354626Bvd1Brain ventricular dilatation QTL 13.730.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)975712843111552878Rat
4889852Pur26Proteinuria QTL 26150.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)977813894101597663Rat
7794784Mcs31Mammary carcinoma susceptibility QTL 312.98mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)977813894111552878Rat
731164Uae25Urinary albumin excretion QTL 253.50.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)925661188100929786Rat
10058949Gmadr5Adrenal mass QTL 520.014adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)94279151387976209Rat
1578757Pur6Proteinuria QTL 63.30.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)96207227596470995Rat
4889943Bss90Bone structure and strength QTL 904.1tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)98636963192058970Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
8 7 7 89 78 75 57 10 57 6 123 35 73 18 42 18

Sequence


Ensembl Acc Id: ENSRNOT00000023581   ⟹   ENSRNOP00000023581
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl986,659,784 - 86,672,272 (+)Ensembl
Rnor_6.0 Ensembl993,030,714 - 93,042,631 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000118132   ⟹   ENSRNOP00000091507
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl986,659,824 - 86,672,272 (+)Ensembl
RefSeq Acc Id: NM_001108805   ⟹   NP_001102275
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8994,108,360 - 94,120,280 (+)NCBI
mRatBN7.2986,660,352 - 86,672,272 (+)NCBI
Rnor_6.0993,030,714 - 93,042,631 (+)NCBI
Rnor_5.0992,760,028 - 92,771,945 (+)NCBI
RGSC_v3.4984,726,151 - 84,738,071 (+)RGD
Celera984,081,552 - 84,093,472 (+)RGD
Sequence:
RefSeq Acc Id: XM_006245411   ⟹   XP_006245473
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8994,111,718 - 94,119,174 (+)NCBI
mRatBN7.2986,663,626 - 86,671,166 (+)NCBI
Rnor_6.0993,034,112 - 93,041,525 (+)NCBI
Rnor_5.0992,760,028 - 92,771,945 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006245412   ⟹   XP_006245474
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8994,111,731 - 94,119,174 (+)NCBI
mRatBN7.2986,663,626 - 86,671,166 (+)NCBI
Rnor_6.0993,034,112 - 93,041,525 (+)NCBI
Rnor_5.0992,760,028 - 92,771,945 (+)NCBI
Sequence:
RefSeq Acc Id: XM_063267444   ⟹   XP_063123514
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8994,107,832 - 94,119,174 (+)NCBI
RefSeq Acc Id: XM_063267445   ⟹   XP_063123515
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8994,107,832 - 94,111,557 (+)NCBI
RefSeq Acc Id: XM_063267446   ⟹   XP_063123516
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8994,107,832 - 94,111,556 (+)NCBI
RefSeq Acc Id: XM_063267447   ⟹   XP_063123517
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8994,111,728 - 94,116,271 (+)NCBI
RefSeq Acc Id: NP_001102275   ⟸   NM_001108805
- UniProtKB: A6JWF7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006245473   ⟸   XM_006245411
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_006245474   ⟸   XM_006245412
- Peptide Label: isoform X6
- Sequence:
Ensembl Acc Id: ENSRNOP00000023581   ⟸   ENSRNOT00000023581
Ensembl Acc Id: ENSRNOP00000091507   ⟸   ENSRNOT00000118132
RefSeq Acc Id: XP_063123514   ⟸   XM_063267444
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063123515   ⟸   XM_063267445
- Peptide Label: isoform X2
RefSeq Acc Id: XP_063123516   ⟸   XM_063267446
- Peptide Label: isoform X3
RefSeq Acc Id: XP_063123517   ⟸   XM_063267447
- Peptide Label: isoform X4

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A784-F1-model_v2 AlphaFold D4A784 1-190 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1308164 AgrOrtholog
BioCyc Gene G2FUF-26910 BioCyc
Ensembl Genes ENSRNOG00000017540 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000023581.5 UniProtKB/TrEMBL
  ENSRNOT00000118132.1 UniProtKB/TrEMBL
InterPro SPATA3 UniProtKB/TrEMBL
KEGG Report rno:363270 UniProtKB/TrEMBL
NCBI Gene 363270 ENTREZGENE
PANTHER PTHR22234 UniProtKB/TrEMBL
  SPERMATOGENESIS-ASSOCIATED PROTEIN 3 UniProtKB/TrEMBL
Pfam SPATA3 UniProtKB/TrEMBL
PhenoGen Spata3 PhenoGen
RatGTEx ENSRNOG00000017540 RatGTEx
UniProt A0A8I6AFR5_RAT UniProtKB/TrEMBL
  A6JWF7 ENTREZGENE, UniProtKB/TrEMBL
  D4A784 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Spata3  spermatogenesis associated 3   Spata3_predicted  spermatogenesis associated 3 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Spata3_predicted  spermatogenesis associated 3 (predicted)      Symbol and Name status set to approved 70820 APPROVED