Cdca4 (cell division cycle associated 4) - Rat Genome Database

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Gene: Cdca4 (cell division cycle associated 4) Rattus norvegicus
Analyze
Symbol: Cdca4
Name: cell division cycle associated 4
RGD ID: 1563593
Description: Predicted to enable transcription coactivator activity. Predicted to be involved in cell division. Predicted to be active in cytoplasm and nucleus. Orthologous to human CDCA4 (cell division cycle associated 4); INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; acrylamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: cell division cycle-associated protein 4; MGC124732
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr86137,713,390 - 137,722,652 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl6137,713,051 - 137,722,580 (-)EnsemblGRCr8
mRatBN7.26131,892,305 - 131,901,571 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl6131,892,087 - 131,901,564 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx6132,062,216 - 132,071,505 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.06132,352,553 - 132,361,940 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.06131,726,809 - 131,736,073 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.06137,396,133 - 137,421,283 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl6137,396,140 - 137,421,283 (-)Ensemblrn6Rnor6.0
Rnor_5.06146,399,231 - 146,423,446 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.46137,818,816 - 137,828,119 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera6129,431,515 - 129,440,777 (-)NCBICelera
Cytogenetic Map6q32NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IBA)
nucleoplasm  (ISO)
nucleus  (IBA,ISO)

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. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
4. 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:16546331  


Genomics

Comparative Map Data
Cdca4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr86137,713,390 - 137,722,652 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl6137,713,051 - 137,722,580 (-)EnsemblGRCr8
mRatBN7.26131,892,305 - 131,901,571 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl6131,892,087 - 131,901,564 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx6132,062,216 - 132,071,505 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.06132,352,553 - 132,361,940 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.06131,726,809 - 131,736,073 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.06137,396,133 - 137,421,283 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl6137,396,140 - 137,421,283 (-)Ensemblrn6Rnor6.0
Rnor_5.06146,399,231 - 146,423,446 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.46137,818,816 - 137,828,119 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera6129,431,515 - 129,440,777 (-)NCBICelera
Cytogenetic Map6q32NCBI
CDCA4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3814105,009,573 - 105,021,083 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl14105,008,533 - 105,025,018 (-)Ensemblhg38GRCh38
GRCh3714105,475,910 - 105,487,420 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3614104,547,318 - 104,558,538 (-)NCBIBuild 36Build 36hg18NCBI36
Build 3414104,547,321 - 104,558,538NCBI
Celera1485,530,125 - 85,541,645 (-)NCBICelera
Cytogenetic Map14q32.33NCBI
HuRef1485,669,752 - 85,681,107 (-)NCBIHuRef
CHM1_114105,413,682 - 105,425,197 (-)NCBICHM1_1
T2T-CHM13v2.01499,254,047 - 99,265,639 (-)NCBIT2T-CHM13v2.0
Cdca4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3912112,783,849 - 112,793,141 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl12112,783,849 - 112,793,043 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm3812112,820,229 - 112,829,521 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl12112,820,229 - 112,829,423 (-)Ensemblmm10GRCm38
MGSCv3712114,058,445 - 114,067,600 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv3612113,268,042 - 113,277,197 (-)NCBIMGSCv36mm8
Celera12114,028,832 - 114,037,944 (-)NCBICelera
Cytogenetic Map12F1NCBI
cM Map1261.2NCBI
Cdca4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555383,344,543 - 3,356,463 (-)Ensembl
ChiLan1.0NW_0049555383,345,116 - 3,356,463 (-)NCBIChiLan1.0ChiLan1.0
CDCA4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v215106,195,127 - 106,206,347 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan114105,405,385 - 105,422,846 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01485,659,022 - 85,670,182 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.114105,443,406 - 105,454,651 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl14105,444,672 - 105,445,397 (-)EnsemblpanPan2panpan1.1
CDCA4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1872,457,671 - 72,465,630 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl872,458,160 - 72,465,767 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha871,970,004 - 71,978,263 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0872,745,649 - 72,753,914 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl872,745,665 - 72,753,922 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1872,426,346 - 72,434,300 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0872,470,894 - 72,478,845 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0872,866,962 - 72,875,221 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Cdca4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244086401,622,967 - 1,629,801 (+)NCBIHiC_Itri_2
SpeTri2.0NW_004936621457,072 - 458,757 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CDCA4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa10.27131,261,595 - 131,274,527 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CDCA4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12482,928,332 - 82,943,701 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2482,929,972 - 82,930,697 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366605370,359,928 - 70,371,381 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cdca4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624734383,667 - 389,554 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_004624734375,351 - 390,595 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Cdca4
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v17130,416,073 - 130,425,272 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Cdca4
98 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:65
Count of miRNA genes:59
Interacting mature miRNAs:63
Transcripts:ENSRNOT00000018596
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1331797Bp213Blood pressure QTL 2133.291arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)6114241077147156653Rat
4145118Mcs26Mammary carcinoma susceptibility QTL 260.0001mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)6112483610147156653Rat
1641917Colcr5Colorectal carcinoma resistance QTL 53.180.0009intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)698944780143944780Rat
71111Iddm8Insulin dependent diabetes mellitus QTL 81.90.002blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)6110921244147156653Rat
724524Uae2Urinary albumin excretion QTL 22.70.0005urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)679198463144254945Rat
1358355Srcrt4Stress Responsive Cort QTL 46.39blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)6106095977147156653Rat
2303624Vencon5Ventilatory control QTL 54.45respiration trait (VT:0001943)minute ventilation (CMO:0000132)693778632138778632Rat
737976Pia24Pristane induced arthritis QTL 24joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)6118366855147156653Rat
2312560Pur20Proteinuria QTL 202.10.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)6131392689143944780Rat
1298087Iddm18Insulin dependent diabetes mellitus QTL 180.0001urine glucose amount (VT:0001758)percentage of study population developing diabetes mellitus during a period of time (CMO:0001114)6122236101147156653Rat
2313399Anxrr28Anxiety related response QTL 28aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)6101593607138161926Rat
12801471Schws9Schwannoma susceptibility QTL 9nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)6101593607146593607Rat
2293085Iddm29Insulin dependent diabetes mellitus QTL 297.66blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)6121444670147156653Rat

Markers in Region
RH131000  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26131,892,466 - 131,892,657 (+)MAPPERmRatBN7.2
Rnor_6.06137,396,295 - 137,396,485NCBIRnor6.0
Rnor_5.06146,399,389 - 146,399,579UniSTSRnor5.0
RGSC_v3.46137,818,974 - 137,819,164UniSTSRGSC3.4
Celera6129,431,673 - 129,431,863UniSTS
RH 3.4 Map6781.61UniSTS
Cytogenetic Map6q32UniSTS
BI294797  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26131,893,973 - 131,894,146 (+)MAPPERmRatBN7.2
Rnor_6.06137,397,802 - 137,397,974NCBIRnor6.0
Rnor_5.06146,400,896 - 146,401,068UniSTSRnor5.0
RGSC_v3.46137,820,482 - 137,820,654UniSTSRGSC3.4
Celera6129,433,180 - 129,433,352UniSTS
Cytogenetic Map6q32UniSTS


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
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 164 91 90 59 92 59 6 356 192 11 143 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000018596   ⟹   ENSRNOP00000064942
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl6137,713,701 - 137,721,085 (-)Ensembl
mRatBN7.2 Ensembl6131,892,621 - 131,901,564 (-)Ensembl
Rnor_6.0 Ensembl6137,396,140 - 137,421,283 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000100777   ⟹   ENSRNOP00000088867
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl6137,713,392 - 137,716,145 (-)Ensembl
mRatBN7.2 Ensembl6131,892,087 - 131,901,564 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000155559   ⟹   ENSRNOP00000100496
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl6137,713,051 - 137,722,580 (-)Ensembl
RefSeq Acc Id: NM_001037214   ⟹   NP_001032291
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr86137,713,390 - 137,722,652 (-)NCBI
mRatBN7.26131,892,309 - 131,901,571 (-)NCBI
Rnor_6.06137,396,137 - 137,421,283 (-)NCBI
Rnor_5.06146,399,231 - 146,423,446 (-)NCBI
RGSC_v3.46137,818,816 - 137,828,119 (-)RGD
Celera6129,431,515 - 129,440,777 (-)RGD
Sequence:
RefSeq Acc Id: XM_008764948   ⟹   XP_008763170
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr86137,713,390 - 137,722,365 (-)NCBI
mRatBN7.26131,892,305 - 131,901,284 (-)NCBI
Rnor_6.06137,396,133 - 137,404,796 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039112763   ⟹   XP_038968691
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr86137,713,390 - 137,722,600 (-)NCBI
mRatBN7.26131,892,305 - 131,901,284 (-)NCBI
RefSeq Acc Id: XM_039112764   ⟹   XP_038968692
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr86137,713,390 - 137,722,600 (-)NCBI
mRatBN7.26131,892,305 - 131,901,483 (-)NCBI
RefSeq Acc Id: NP_001032291   ⟸   NM_001037214
- UniProtKB: Q3B7C7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008763170   ⟸   XM_008764948
- Peptide Label: isoform X2
- UniProtKB: Q3B7C7 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000064942   ⟸   ENSRNOT00000018596
RefSeq Acc Id: XP_038968692   ⟸   XM_039112764
- Peptide Label: isoform X1
- UniProtKB: M0R698 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038968691   ⟸   XM_039112763
- Peptide Label: isoform X1
- UniProtKB: M0R698 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000088867   ⟸   ENSRNOT00000100777
Ensembl Acc Id: ENSRNOP00000100496   ⟸   ENSRNOT00000155559
Protein Domains
SERTA

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q3B7C7-F1-model_v2 AlphaFold Q3B7C7 1-237 view protein structure

Transcriptome

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

Promoters
RGD ID:13694856
Promoter ID:EPDNEW_R5379
Type:multiple initiation site
Name:Cdca4_1
Description:cell division cycle associated 4
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_6.06137,421,100 - 137,421,160EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1563593 AgrOrtholog
BioCyc Gene G2FUF-35773 BioCyc
Ensembl Genes ENSRNOG00000013898 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000018596 ENTREZGENE
  ENSRNOT00000018596.7 UniProtKB/TrEMBL
  ENSRNOT00000100777 ENTREZGENE
  ENSRNOT00000100777.2 UniProtKB/TrEMBL
  ENSRNOT00000155559 ENTREZGENE
  ENSRNOT00000155559.1 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7937865 IMAGE-MGC_LOAD
InterPro E2F-SERTA_domain_protein UniProtKB/TrEMBL
  SERTA UniProtKB/TrEMBL
KEGG Report rno:500727 UniProtKB/TrEMBL
MGC_CLONE MGC:124732 IMAGE-MGC_LOAD
NCBI Gene 500727 ENTREZGENE
PANTHER CELL DIVISION CYCLE ASSOCIATED PROTEIN 4/SERTA DOMAIN-CONTAINING PROTEIN 2 UniProtKB/TrEMBL
  CELL DIVISION CYCLE-ASSOCIATED PROTEIN 4 UniProtKB/TrEMBL
Pfam SERTA UniProtKB/TrEMBL
PhenoGen Cdca4 PhenoGen
PROSITE SERTA UniProtKB/TrEMBL
RatGTEx ENSRNOG00000013898 RatGTEx
UniProt A0ABK0LH46_RAT UniProtKB/TrEMBL
  A6KBW7_RAT UniProtKB/TrEMBL
  M0R698 ENTREZGENE, UniProtKB/TrEMBL
  Q3B7C7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2006-02-09 Cdca4  cell division cycle associated 4      Symbol and Name status set to provisional 70820 PROVISIONAL