Spdya (speedy/RINGO cell cycle regulator family member A) - Rat Genome Database

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Gene: Spdya (speedy/RINGO cell cycle regulator family member A) Rattus norvegicus
Analyze
Symbol: Spdya
Name: speedy/RINGO cell cycle regulator family member A
RGD ID: 621730
Description: Predicted to enable protein kinase activator activity and protein kinase binding activity. Predicted to be involved in several processes, including G1/S transition of mitotic cell cycle; male meiotic nuclear division; and positive regulation of cell cycle. Predicted to be located in endoplasmic reticulum exit site and nucleus. Predicted to be active in nucleoplasm. Orthologous to human SPDYA (speedy/RINGO cell cycle regulator family member A); INTERACTS WITH 1,3-dinitrobenzene; 2,2',4,4'-Tetrabromodiphenyl ether; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: Gs4; Lm23; rapid inducer of G2/M progression in oocytes A; RINGO A; Spdy1; speedy homolog 1; speedy homolog 1 (Drosophila); speedy homolog A; speedy homolog A (Drosophila); speedy homolog A (Xenopus laevis); speedy protein A; speedy-1; spermatogenesis related protein Gs4; Spy1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2623,905,574 - 23,954,926 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl623,910,223 - 23,954,850 (-)Ensembl
Rnor_6.0623,493,686 - 23,543,236 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl623,498,511 - 23,543,172 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0633,364,979 - 33,410,506 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4624,016,267 - 24,060,920 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1624,019,221 - 24,063,873 (-)NCBI
Celera623,409,397 - 23,454,049 (-)NCBICelera
Cytogenetic Map6q13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
3. GOA pipeline RGD automated data pipeline
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. Information Derived from GenBank Report RGD, Sept. 2003
7. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
Additional References at PubMed
PMID:11980914   PMID:12839962   PMID:15489334   PMID:15611625   PMID:17376406   PMID:19082704   PMID:20036869   PMID:20339383   PMID:22751172   PMID:23129232   PMID:23685908   PMID:28666995  


Genomics

Comparative Map Data
Spdya
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2623,905,574 - 23,954,926 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl623,910,223 - 23,954,850 (-)Ensembl
Rnor_6.0623,493,686 - 23,543,236 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl623,498,511 - 23,543,172 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0633,364,979 - 33,410,506 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4624,016,267 - 24,060,920 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1624,019,221 - 24,063,873 (-)NCBI
Celera623,409,397 - 23,454,049 (-)NCBICelera
Cytogenetic Map6q13NCBI
SPDYA
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38228,810,834 - 28,850,610 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl228,782,517 - 28,850,611 (+)EnsemblGRCh38hg38GRCh38
GRCh37229,033,700 - 29,073,476 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36228,887,221 - 28,926,980 (+)NCBINCBI36hg18NCBI36
Build 34228,945,367 - 28,985,124NCBI
Celera228,882,807 - 28,918,487 (+)NCBI
Cytogenetic Map2p23.2NCBI
HuRef228,775,655 - 28,815,604 (+)NCBIHuRef
CHM1_1228,963,754 - 29,003,797 (+)NCBICHM1_1
T2T-CHM13v2.0228,854,444 - 28,894,219 (+)NCBI
Spdya
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391771,833,890 - 71,896,528 (+)NCBIGRCm39mm39
GRCm39 Ensembl1771,859,056 - 71,896,528 (+)Ensembl
GRCm381771,526,895 - 71,589,533 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1771,552,061 - 71,589,533 (+)EnsemblGRCm38mm10GRCm38
MGSCv371771,901,401 - 71,938,873 (+)NCBIGRCm37mm9NCBIm37
MGSCv361771,456,918 - 71,493,531 (+)NCBImm8
MGSCv361770,692,103 - 70,728,732 (+)NCBImm8
Celera1775,827,774 - 75,865,225 (+)NCBICelera
Cytogenetic Map17E1.3NCBI
Spdya
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495546910,687,519 - 10,744,808 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495546910,687,519 - 10,744,808 (+)NCBIChiLan1.0ChiLan1.0
SPDYA
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12A28,897,109 - 28,936,165 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A28,897,109 - 28,936,165 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02A28,817,415 - 28,857,149 (+)NCBIMhudiblu_PPA_v0panPan3
SPDYA
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11722,708,202 - 22,742,855 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1722,708,307 - 22,742,291 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1722,502,755 - 22,537,402 (+)NCBI
ROS_Cfam_1.01723,271,040 - 23,305,751 (+)NCBI
ROS_Cfam_1.0 Ensembl1723,271,145 - 23,305,187 (+)Ensembl
UMICH_Zoey_3.11722,570,320 - 22,605,001 (+)NCBI
UNSW_CanFamBas_1.01722,622,899 - 22,657,554 (+)NCBI
UU_Cfam_GSD_1.01722,739,064 - 22,773,738 (+)NCBI
Spdya
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629266,870,372 - 66,903,557 (+)NCBI
SpeTri2.0NW_0049364933,937,297 - 3,967,884 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SPDYA
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl3110,397,844 - 110,433,373 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.13110,397,844 - 110,433,250 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.23117,220,428 - 117,261,217 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SPDYA
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11478,756,606 - 78,792,788 (-)NCBIChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604533,345,609 - 33,379,890 (+)NCBIVero_WHO_p1.0
Spdya
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473810,742,667 - 10,790,176 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_00462473810,742,668 - 10,790,243 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
RH133497  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2623,921,690 - 23,921,872 (+)MAPPERmRatBN7.2
Rnor_6.0623,510,011 - 23,510,192NCBIRnor6.0
Rnor_5.0633,376,666 - 33,376,847UniSTSRnor5.0
RGSC_v3.4624,027,765 - 24,027,946UniSTSRGSC3.4
Celera623,420,895 - 23,421,076UniSTS
Cytogenetic Map6q13UniSTS
RH138243  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2623,910,286 - 23,910,420 (+)MAPPERmRatBN7.2
Rnor_6.0623,498,607 - 23,498,740NCBIRnor6.0
Rnor_5.0633,365,073 - 33,365,206UniSTSRnor5.0
RGSC_v3.4624,016,361 - 24,016,494UniSTSRGSC3.4
Celera623,409,491 - 23,409,624UniSTS
Cytogenetic Map6q13UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
738023Alc17Alcohol consumption QTL 173.10.003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)6127574569Rat
1354616Despr12Despair related QTL 120.0012locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)6127574569Rat
1549905Stresp10Stress response QTL 106.830.0066stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)6127574569Rat
2300176Bmd51Bone mineral density QTL 5111.70.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)6127574569Rat
2300190Bmd52Bone mineral density QTL 5211.20.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)6127574569Rat
1331743Uae28Urinary albumin excretion QTL 284.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)6134235784Rat
1578758Tcas9Tongue tumor susceptibility QTL 93.29tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)6137618905Rat
1598843Cm63Cardiac mass QTL 632.6heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)6139036266Rat
7411603Foco13Food consumption QTL 135.50.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)6141223769Rat
8552962Pigfal16Plasma insulin-like growth factor 1 level QTL 169.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)6141223769Rat
7411542Bw127Body weight QTL 1275.50.001body mass (VT:0001259)body weight gain (CMO:0000420)6141223769Rat
9589129Insul24Insulin level QTL 2419.060.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)6141223769Rat
9589048Scfw3Subcutaneous fat weight QTL 34.570.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)6141223769Rat
2293709Bss23Bone structure and strength QTL 235.180.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)6142487980Rat
2293650Bss31Bone structure and strength QTL 315.050.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)6142487980Rat
2293656Bss28Bone structure and strength QTL 286.790.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)6142487980Rat
7411584Foco4Food consumption QTL 44.30.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)6142838846Rat
738024Sach5Saccharine consumption QTL 53.90.00039consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)6143394190Rat
2301972Bp325Blood pressure QTL 3254.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)6172227641Rat
1300128Rf16Renal function QTL 163.89renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)6507449734434305Rat
1300164Rf15Renal function QTL 153.12renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)6507449754641141Rat
4145119Mcs25Mammary carcinoma susceptibility QTL 250.0001mammary gland integrity trait (VT:0010552)ratio of deaths to total study population during a period of time (CMO:0001023)610894415110548006Rat
1578665Bss16Bone structure and strength QTL 164.4femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)61173566972593685Rat
1578668Bmd14Bone mineral density QTL 143.8femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)61173566972593685Rat
10401812Kidm54Kidney mass QTL 54kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)61436878859368788Rat
10401800Kidm49Kidney mass QTL 49kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)61436878859368788Rat
1576309Emca7Estrogen-induced mammary cancer QTL 74mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)615107216107351382Rat
1359023Bp272Blood pressure QTL 2722.5arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)61653614027261739Rat
2292589Emca10Estrogen-induced mammary cancer QTL 100.048mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)61653614061536140Rat
1354664Slep2Serum leptin concentration QTL 24.49blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)61653614071636405Rat
1641898Colcr4Colorectal carcinoma resistance QTL43.710.0007intestine integrity trait (VT:0010554)well differentiated malignant colorectal tumor surface area measurement (CMO:0002077)62033877762613667Rat
2293839Kiddil2Kidney dilation QTL 24.8kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)62086642281133036Rat
2293841Kiddil4Kidney dilation QTL 44.4kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)62086642281133036Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:207
Count of miRNA genes:144
Interacting mature miRNAs:160
Transcripts:ENSRNOT00000006073
Prediction methods:Microtar, 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.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 13
Low 1 18 4 1 1 8 11 54 1 22 11 8
Below cutoff 2 23 29 16 19 16 20 34 6

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000006073   ⟹   ENSRNOP00000006073
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl623,910,223 - 23,954,850 (-)Ensembl
Rnor_6.0 Ensembl623,498,543 - 23,543,172 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000083858   ⟹   ENSRNOP00000074240
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl623,498,511 - 23,542,928 (-)Ensembl
RefSeq Acc Id: NM_138855   ⟹   NP_620210
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2623,910,193 - 23,954,850 (-)NCBI
Rnor_6.0623,498,513 - 23,543,166 (-)NCBI
Rnor_5.0633,364,979 - 33,410,506 (-)NCBI
RGSC_v3.4624,016,267 - 24,060,920 (-)RGD
Celera623,409,397 - 23,454,049 (-)RGD
Sequence:
RefSeq Acc Id: XM_006239768   ⟹   XP_006239830
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2623,910,198 - 23,954,919 (-)NCBI
Rnor_6.0623,498,518 - 23,543,236 (-)NCBI
Rnor_5.0633,364,979 - 33,410,506 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017594029   ⟹   XP_017449518
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2623,905,574 - 23,954,506 (-)NCBI
Rnor_6.0623,493,686 - 23,542,822 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039111749   ⟹   XP_038967677
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2623,905,574 - 23,954,919 (-)NCBI
RefSeq Acc Id: XM_039111750   ⟹   XP_038967678
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2623,905,574 - 23,954,688 (-)NCBI
RefSeq Acc Id: XM_039111751   ⟹   XP_038967679
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2623,905,574 - 23,954,926 (-)NCBI
RefSeq Acc Id: XM_039111752   ⟹   XP_038967680
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2623,910,193 - 23,954,926 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_620210   ⟸   NM_138855
- UniProtKB: Q8R496 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006239830   ⟸   XM_006239768
- Peptide Label: isoform X2
- UniProtKB: Q8R496 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017449518   ⟸   XM_017594029
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000006073   ⟸   ENSRNOT00000006073
RefSeq Acc Id: ENSRNOP00000074240   ⟸   ENSRNOT00000083858
RefSeq Acc Id: XP_038967679   ⟸   XM_039111751
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038967677   ⟸   XM_039111749
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038967678   ⟸   XM_039111750
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038967680   ⟸   XM_039111752
- Peptide Label: isoform X4

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q8R496-F1-model_v2 AlphaFold Q8R496 1-312 view protein structure

Transcriptome

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

Promoters
RGD ID:13694418
Promoter ID:EPDNEW_R4943
Type:initiation region
Name:Spdya_1
Description:speedy/RINGO cell cycle regulator family member A
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0623,543,157 - 23,543,217EPDNEW

Strain Variation

Strain Sequence Variants (MRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: Rnor_6.0
Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
6 23495638 23495639 T C snv CDR, WKY/N (2020), WKY/N (MCW), GK/Ox (RGD), LE/Stm (RGD), WKY/NCrl (RGD), WKY/NHsd (RGD), FXLE16/Stm (2020), FXLE18/Stm (2020), GK/FarMcwi (2019), LEXF11/Stm (2020), LEXF1A/Stm (2019), LEXF1C/Stm (2019), LEXF2B/Stm (2019), LE/Stm (2019), WKY/NCrl (2019), CDS


Assembly: mRatBN7.2
Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
6 23907318 23907319 T C snv FXLE16/Stm (2020), FXLE18/Stm (2020), GK/FarMcwi (2019), LEXF11/Stm (2020), WKY/N (2020), LEXF1C/Stm (2019), LEXF2B/Stm (2019), LE/Stm (2019), WKY/NCrl (2019), LEXF1A/Stm (2019)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621730 AgrOrtholog
BioCyc Gene G2FUF-38380 BioCyc
Ensembl Genes ENSRNOG00000004534 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000006073 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000006073 ENTREZGENE, UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7134092 IMAGE-MGC_LOAD
InterPro Speedy UniProtKB/Swiss-Prot
KEGG Report rno:192209 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93178 IMAGE-MGC_LOAD
NCBI Gene 192209 ENTREZGENE
Pfam Spy1 UniProtKB/Swiss-Prot
PhenoGen Spdya PhenoGen
UniProt Q8R496 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q68G34 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-05-15 Spdya  speedy/RINGO cell cycle regulator family member A  Spdya  speedy homolog A (Xenopus laevis)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-12-12 Spdya  speedy homolog A (Xenopus laevis)  Spdya  speedy homolog A (Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-25 Spdya  speedy homolog A (Drosophila)  Spdy1  speedy homolog 1 (Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Spdy1  speedy homolog 1 (Drosophila)  Gs4  spermatogenesis related protein Gs4  Symbol and Name updated 1299863 APPROVED
2002-08-07 Gs4  spermatogenesis related protein Gs4      Symbol and Name status set to provisional 70820 PROVISIONAL