Cdca2 (cell division cycle associated 2) - Rat Genome Database

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Gene: Cdca2 (cell division cycle associated 2) Rattus norvegicus
Analyze
Symbol: Cdca2
Name: cell division cycle associated 2
RGD ID: 1311003
Description: Predicted to be involved in regulation of chromosome segregation and regulation of mitotic nuclear division. Predicted to act upstream of or within chromosome segregation and positive regulation of protein dephosphorylation. Predicted to be located in cytosol and nucleoplasm. Predicted to be active in chromosome and nucleus. Orthologous to human CDCA2 (cell division cycle associated 2); INTERACTS WITH 1-naphthyl isothiocyanate; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: cell division cycle-associated protein 2; LOC305984
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
mRatBN7.21541,895,946 - 41,942,226 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1541,895,901 - 41,941,611 (-)Ensembl
Rnor_6.01544,365,396 - 44,411,601 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1544,365,405 - 44,411,004 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01547,185,590 - 47,231,348 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41547,225,711 - 47,271,412 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11547,241,861 - 47,287,342 (-)NCBI
Celera1541,559,981 - 41,605,879 (-)NCBICelera
Cytogenetic Map15p12NCBI
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
(-)-demecolcine  (ISO)
1,2-dimethylhydrazine  (ISO)
1-chloro-2,4-dinitrobenzene  (ISO)
1-naphthyl isothiocyanate  (EXP)
17beta-estradiol  (EXP)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3-methylcholanthrene  (ISO)
4-(ethoxymethylene)-2-phenyloxazol-5-one  (ISO)
4-hydroxynon-2-enal  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
acrylamide  (EXP)
aflatoxin B1  (EXP,ISO)
all-trans-retinoic acid  (ISO)
aristolochic acid  (ISO)
arsenite(3-)  (ISO)
azathioprine  (ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
cadmium atom  (ISO)
calcitriol  (ISO)
carbon nanotube  (ISO)
cefaloridine  (EXP)
CGP 52608  (ISO)
chlorpyrifos  (ISO)
choline  (ISO)
cisplatin  (ISO)
cobalt dichloride  (ISO)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
cyclosporin A  (ISO)
DDT  (EXP)
dexamethasone  (ISO)
diazinon  (EXP)
dibutyl phthalate  (ISO)
dieldrin  (EXP)
diethyl maleate  (EXP)
dioxygen  (EXP,ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
Enterolactone  (ISO)
folic acid  (ISO)
furan  (EXP)
geldanamycin  (ISO)
glycidol  (EXP)
hydrogen peroxide  (ISO)
hydroquinone  (ISO)
indometacin  (ISO)
L-methionine  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
leflunomide  (ISO)
lucanthone  (ISO)
mercury dichloride  (ISO)
miconazole  (ISO)
motexafin gadolinium  (ISO)
N-Nitrosopyrrolidine  (ISO)
nickel atom  (ISO)
nickel dichloride  (EXP)
niclosamide  (ISO)
oxaliplatin  (EXP)
ozone  (ISO)
paracetamol  (EXP,ISO)
PCB138  (ISO)
phenobarbital  (ISO)
pinosylvin  (ISO)
pirinixic acid  (ISO)
resveratrol  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
streptozocin  (ISO)
sunitinib  (ISO)
temozolomide  (ISO)
testosterone  (ISO)
tetrachloromethane  (ISO)
thapsigargin  (ISO)
thimerosal  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
toluene 2,4-diisocyanate  (ISO)
topotecan  (EXP)
trans-pinosylvin  (ISO)
trichloroethene  (EXP,ISO)
trichostatin A  (ISO)
trimellitic anhydride  (ISO)
triptonide  (ISO)
tunicamycin  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vorinostat  (ISO)
zinc acetate  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
chromosome  (IBA,ISO)
cytosol  (IEA,ISO)
nucleoplasm  (IEA,ISO)
nucleus  (IBA)

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. 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:12477932   PMID:22801782  


Genomics

Comparative Map Data
Cdca2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21541,895,946 - 41,942,226 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1541,895,901 - 41,941,611 (-)Ensembl
Rnor_6.01544,365,396 - 44,411,601 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1544,365,405 - 44,411,004 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01547,185,590 - 47,231,348 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41547,225,711 - 47,271,412 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11547,241,861 - 47,287,342 (-)NCBI
Celera1541,559,981 - 41,605,879 (-)NCBICelera
Cytogenetic Map15p12NCBI
CDCA2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38825,458,931 - 25,507,917 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl825,459,199 - 25,507,911 (+)EnsemblGRCh38hg38GRCh38
GRCh37825,316,447 - 25,365,433 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36825,372,428 - 25,421,342 (+)NCBINCBI36hg18NCBI36
Build 34825,372,429 - 25,421,342NCBI
Celera824,278,060 - 24,326,920 (+)NCBI
Cytogenetic Map8p21.2NCBI
HuRef823,861,484 - 23,910,346 (+)NCBIHuRef
CHM1_1825,517,979 - 25,566,826 (+)NCBICHM1_1
T2T-CHM13v2.0825,734,151 - 25,783,086 (+)NCBI
Cdca2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391467,910,629 - 67,953,290 (-)NCBIGRCm39mm39
GRCm39 Ensembl1467,913,780 - 67,953,290 (-)Ensembl
GRCm381467,673,180 - 67,715,841 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1467,676,331 - 67,715,841 (-)EnsemblGRCm38mm10GRCm38
MGSCv371468,294,411 - 68,333,898 (-)NCBIGRCm37mm9NCBIm37
MGSCv361466,629,951 - 66,660,755 (-)NCBImm8
Celera1465,433,981 - 65,473,487 (-)NCBICelera
Cytogenetic Map14D1NCBI
Cdca2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540348,375,287 - 48,419,955 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540348,374,276 - 48,417,130 (+)NCBIChiLan1.0ChiLan1.0
CDCA2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1821,648,782 - 21,697,584 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl821,650,086 - 21,697,584 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0824,739,705 - 24,788,898 (+)NCBIMhudiblu_PPA_v0panPan3
CDCA2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12531,943,649 - 31,997,101 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2531,947,094 - 31,996,022 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2532,528,674 - 32,582,189 (-)NCBI
ROS_Cfam_1.02532,142,593 - 32,196,409 (-)NCBI
ROS_Cfam_1.0 Ensembl2532,145,921 - 32,195,032 (-)Ensembl
UMICH_Zoey_3.12532,098,317 - 32,152,106 (-)NCBI
UNSW_CanFamBas_1.02531,947,903 - 32,001,606 (-)NCBI
UU_Cfam_GSD_1.02532,113,782 - 32,166,984 (-)NCBI
Cdca2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049439,940,250 - 9,997,577 (-)NCBI
SpeTri2.0NW_0049367571,195,604 - 1,249,367 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CDCA2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl149,518,201 - 9,566,588 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1149,517,763 - 9,571,303 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21410,682,849 - 10,731,706 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CDCA2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1823,582,062 - 23,631,590 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl823,582,744 - 23,632,045 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605218,535,616 - 18,584,889 (-)NCBIVero_WHO_p1.0
Cdca2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475820,491,118 - 20,538,653 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_00462475820,490,902 - 20,537,171 (+)NCBIHetGla_female_1.0hetGla2


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1641887Alcrsp14Alcohol response QTL 14response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)15142356671Rat
2298549Neuinf12Neuroinflammation QTL 123.5nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)15155302115Rat
10401805Kidm51Kidney mass QTL 51kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1530632945306329Rat
738017Hcas7Hepatocarcinoma susceptibility QTL 72.91liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)15226636846921453Rat
1582251Gluco24Glucose level QTL 243.20.0008blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)15553075650530756Rat
631273Lecl2Lens clarity QTL 20.001lens clarity trait (VT:0001304)age of onset/diagnosis of cataract (CMO:0001584)151059608955596089Rat
2300167Bmd63Bone mineral density QTL 635.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)151111114256111142Rat
2300173Bmd62Bone mineral density QTL 6212.80.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)151111114256111142Rat
2293688Bss29Bone structure and strength QTL 295.310.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)151111114256111142Rat
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151249614165205939Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151672552880672115Rat
1331729Rf42Renal function QTL 423.071kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)151736289773690657Rat
2324620Coatc3Coat color QTL 3coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)151985656646187442Rat
10054130Srcrt8Stress Responsive Cort QTL 82.180.0085blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)152211793367117933Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)152280624098288169Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)152280624098288169Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)152280624098288169Rat
1582214Stl21Serum triglyceride level QTL 213.10.022blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)152803066582262678Rat
1582227Gluco30Glucose level QTL 303.60.0003blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)152803066582262678Rat
1582228Epfw3Epididymal fat weight QTL 34.10.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)152803066582262678Rat
1582242Gluco28Glucose level QTL 283.30.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)152803066582262678Rat
1582244Bw79Body weight QTL 7940.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)152803066582262678Rat
2293691Bmd37Bone mineral density QTL 376.60.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)153361105871477291Rat
2293686Bmd36Bone mineral density QTL 367.40.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)153361105871477291Rat
1598828Glom14Glomerulus QTL 142.5kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)153405413979054139Rat
7411725Strs7Sensitivity to stroke QTL 73.8cerebrum integrity trait (VT:0010549)percentage of study population developing cerebrovascular lesions during a period of time (CMO:0000932)154028990149308583Rat
2306968Anxrr23Anxiety related response QTL 234.83reflex trait (VT:0001961)amplitude of the acoustic startle response (CMO:0001520)154063126846187442Rat
1300144Rf23Renal function QTL 233.61renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)154063126898288169Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:84
Count of miRNA genes:63
Interacting mature miRNAs:79
Transcripts:ENSRNOT00000031163
Prediction methods: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.


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 2 22 25 18 11 18 30 16 35
Low 1 14 23 16 8 16 4 4 28 17 6 11 4
Below cutoff 7 9 7 7 4 7 16 2 4

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000031163   ⟹   ENSRNOP00000038312
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1541,895,901 - 41,941,243 (-)Ensembl
Rnor_6.0 Ensembl1544,365,405 - 44,411,004 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000102698   ⟹   ENSRNOP00000079797
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1541,896,338 - 41,941,611 (-)Ensembl
RefSeq Acc Id: NM_001107273   ⟹   NP_001100743
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21541,895,960 - 41,941,630 (-)NCBI
Rnor_6.01544,365,405 - 44,411,004 (-)NCBI
Rnor_5.01547,185,590 - 47,231,348 (+)NCBI
RGSC_v3.41547,225,711 - 47,271,412 (-)RGD
Celera1541,559,981 - 41,605,879 (-)RGD
Sequence:
RefSeq Acc Id: XM_006252117   ⟹   XP_006252179
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21541,895,946 - 41,941,837 (-)NCBI
Rnor_6.01544,365,396 - 44,411,074 (-)NCBI
Rnor_5.01547,185,590 - 47,231,348 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006252118   ⟹   XP_006252180
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21541,895,946 - 41,941,837 (-)NCBI
Rnor_6.01544,365,396 - 44,411,302 (-)NCBI
Rnor_5.01547,185,590 - 47,231,348 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006252120   ⟹   XP_006252182
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21541,895,946 - 41,941,838 (-)NCBI
Rnor_6.01544,365,396 - 44,411,074 (-)NCBI
Rnor_5.01547,185,590 - 47,231,348 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006252121   ⟹   XP_006252183
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21541,895,946 - 41,934,156 (-)NCBI
Rnor_6.01544,365,396 - 44,404,014 (-)NCBI
Rnor_5.01547,185,590 - 47,231,348 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008770757   ⟹   XP_008768979
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21541,895,946 - 41,934,147 (-)NCBI
Rnor_6.01544,365,396 - 44,404,014 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017599696   ⟹   XP_017455185
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21541,895,946 - 41,942,226 (-)NCBI
Rnor_6.01544,365,447 - 44,411,601 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_001100743   ⟸   NM_001107273
- UniProtKB: D4ADI8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006252182   ⟸   XM_006252120
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006252180   ⟸   XM_006252118
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006252179   ⟸   XM_006252117
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006252183   ⟸   XM_006252121
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_008768979   ⟸   XM_008770757
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_017455185   ⟸   XM_017599696
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000038312   ⟸   ENSRNOT00000031163
RefSeq Acc Id: ENSRNOP00000079797   ⟸   ENSRNOT00000102698

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4ADI8-F1-model_v2 AlphaFold D4ADI8 1-981 view protein structure

Transcriptome

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

Promoters
RGD ID:13699763
Promoter ID:EPDNEW_R10286
Type:initiation region
Name:Cdca2_1
Description:cell division cycle associated 2
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_6.01544,410,981 - 44,411,041EPDNEW

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)
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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
BN/SsN (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
BUF/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
BXH2/CubMcwi (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
BXH3/CubMcwi (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
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)
Visual CSV TAB Printer
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
15 44389892 44389893 T G snv FHH/EurMcwi (MCW)


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
15 47206852 47206853 A C snv FHH/EurMcwi (MCW)
15 47229687 47229688 A G snv Crl:SD (UDEL), SDLEF7/Barth (UDEL), DOB/Oda (KyushuU)
15 47229768 47229769 G T snv SDLEF7/Barth (UDEL), Crl:SD (UDEL), DOB/Oda (KyushuU)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
15 47250198 47250199 T G snv ACI/EurMcwi (MCW), SS/JrHsdMcwi (MCW), SR/JrHsd (MCW), FHH/EurMcwi (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1311003 AgrOrtholog
BioCyc Gene G2FUF-13304 BioCyc
Ensembl Genes ENSRNOG00000025302 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000038312 ENTREZGENE
  ENSRNOP00000038312.5 UniProtKB/TrEMBL
  ENSRNOP00000079797 ENTREZGENE
  ENSRNOP00000079797.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000031163 ENTREZGENE
  ENSRNOT00000031163.5 UniProtKB/TrEMBL
  ENSRNOT00000102698 ENTREZGENE
  ENSRNOT00000102698.1 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7131691 IMAGE-MGC_LOAD
InterPro CDCA2 UniProtKB/TrEMBL
  PP1-bd UniProtKB/TrEMBL
KEGG Report rno:305984 UniProtKB/TrEMBL
MGC_CLONE MGC:94256 IMAGE-MGC_LOAD
NCBI Gene 305984 ENTREZGENE
PANTHER PTHR21603:SF16 UniProtKB/TrEMBL
Pfam PP1_bind UniProtKB/TrEMBL
PhenoGen Cdca2 PhenoGen
UniProt A0A8I5ZNC7_RAT UniProtKB/TrEMBL
  D4ADI8 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-12-06 Cdca2  cell division cycle associated 2  Cdca2_predicted  cell division cycle associated 2 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Cdca2_predicted  cell division cycle associated 2 (predicted)      Symbol and Name status set to approved 70820 APPROVED