CDA (cytidine deaminase) - Rat Genome Database

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Gene: CDA (cytidine deaminase) Sus scrofa
Analyze
Symbol: CDA
Name: cytidine deaminase
RGD ID: 14093813
Description: ENCODES a protein that exhibits cytidine deaminase activity (ortholog); INVOLVED IN cellular response to external biotic stimulus (ortholog); cytidine deamination (ortholog); response to cycloheximide (ortholog); PARTICIPATES IN beta-ureidopropionase deficiency pathway; capecitabine pharmacodynamics pathway; capecitabine pharmacokinetics pathway; ASSOCIATED WITH 3-Hydroxy-3-Methylglutaryl-CoA Lyase Deficiency (ortholog); Breast Neoplasms (ortholog); congenital disorder of glycosylation Ir (ortholog); FOUND IN cytoplasm (inferred); cytosol (inferred); INTERACTS WITH deoxynivalenol
Type: protein-coding
RefSeq Status: VALIDATED
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl678,824,270 - 78,849,547 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1678,824,248 - 78,849,154 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2673,017,555 - 73,042,459 (+)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytoplasm  (IEA)
cytosol  (IBA,IEA)

Molecular Function

References
Additional References at PubMed
PMID:14681463   PMID:15679890   PMID:17145712   PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
CDA
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl678,824,270 - 78,849,547 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1678,824,248 - 78,849,154 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2673,017,555 - 73,042,459 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CDA
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38120,589,097 - 20,618,903 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl120,589,086 - 20,618,903 (+)EnsemblGRCh38hg38GRCh38
GRCh37120,915,590 - 20,945,396 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36120,788,031 - 20,817,988 (+)NCBINCBI36Build 36hg18NCBI36
Build 34120,660,836 - 20,690,702NCBI
Celera119,239,772 - 19,269,752 (+)NCBICelera
Cytogenetic Map1p36.12NCBI
HuRef119,161,467 - 19,190,528 (+)NCBIHuRef
CHM1_1121,025,824 - 21,055,781 (+)NCBICHM1_1
T2T-CHM13v2.0120,414,048 - 20,443,922 (+)NCBIT2T-CHM13v2.0
Cda
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394138,065,839 - 138,095,623 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl4138,065,735 - 138,095,303 (-)EnsemblGRCm39 Ensembl
GRCm384138,338,528 - 138,368,311 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4138,338,424 - 138,367,992 (-)EnsemblGRCm38mm10GRCm38
MGSCv374137,894,443 - 137,923,870 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv364137,610,604 - 137,640,031 (-)NCBIMGSCv36mm8
Celera4140,122,623 - 140,152,350 (-)NCBICelera
Cytogenetic Map4D3NCBI
cM Map470.17NCBI
Cda
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85155,839,929 - 155,866,541 (-)NCBIGRCr8
mRatBN7.25150,556,615 - 150,583,231 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5150,556,615 - 150,583,231 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5153,252,247 - 153,279,877 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05155,026,533 - 155,054,163 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05155,008,554 - 155,036,184 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.05156,703,579 - 156,734,541 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5156,703,579 - 156,734,541 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl5156,757,044 - 156,781,291 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05160,452,101 - 160,482,729 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45157,117,303 - 157,143,989 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.15157,127,441 - 157,153,991 (-)NCBI
Celera5148,950,060 - 148,976,672 (-)NCBICelera
Cytogenetic Map5q36NCBI
Cda
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554521,132,049 - 1,156,565 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554521,131,968 - 1,156,777 (+)NCBIChiLan1.0ChiLan1.0
CDA
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21206,506,028 - 206,535,363 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11205,618,335 - 205,647,685 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0119,538,696 - 19,568,008 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1120,583,441 - 20,612,711 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl120,583,441 - 20,612,711 (+)Ensemblpanpan1.1panPan2
CDA
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1278,305,328 - 78,327,229 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl278,304,726 - 78,327,247 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha274,819,639 - 74,841,500 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0278,872,416 - 78,894,283 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl278,870,359 - 78,894,541 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1275,690,869 - 75,712,919 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0276,702,707 - 76,724,560 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0277,706,391 - 77,728,271 (-)NCBIUU_Cfam_GSD_1.0
Cda
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505840,718,495 - 40,739,795 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364746,543,220 - 6,566,308 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364746,543,295 - 6,564,575 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CDA
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.120111,931,365 - 111,960,172 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl20111,931,364 - 111,960,036 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660334,270,608 - 4,299,725 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cda
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247645,621,899 - 5,645,850 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247645,621,888 - 5,645,055 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in CDA
839 total Variants

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 hemolymphoid system nervous system renal system reproductive system respiratory system
High
Medium 6 1 2 1 3
Low 2 3 2 7 1
Below cutoff 1 3 2 5 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000026673   ⟹   ENSSSCP00000021047
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl678,824,270 - 78,849,547 (+)Ensembl
RefSeq Acc Id: NM_001244385   ⟹   NP_001231314
RefSeq Status: VALIDATED
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1678,824,248 - 78,849,154 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001231314 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSSCP00000021047
  ENSSSCP00000021047.1
  ENSSSCP00025010649.1
  ENSSSCP00035049016.1
  ENSSSCP00045017872.1
  ENSSSCP00050048492.1
  ENSSSCP00055020562.1
Reference Protein Sequences
RefSeq Acc Id: NP_001231314   ⟸   NM_001244385
- UniProtKB: A0A8D1P6K9 (UniProtKB/TrEMBL),   I3LAH9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000021047   ⟸   ENSSSCT00000026673
Protein Domains
CMP/dCMP-type deaminase


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000021259 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00025018542 UniProtKB/TrEMBL
  ENSSSCG00035081198 UniProtKB/TrEMBL
  ENSSSCG00045015232 UniProtKB/TrEMBL
  ENSSSCG00050078960 UniProtKB/TrEMBL
  ENSSSCG00055013151 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000026673 ENTREZGENE
  ENSSSCT00000026673.5 UniProtKB/TrEMBL
  ENSSSCT00025025221.1 UniProtKB/TrEMBL
  ENSSSCT00035111665.1 UniProtKB/TrEMBL
  ENSSSCT00045025905.1 UniProtKB/TrEMBL
  ENSSSCT00050108991.1 UniProtKB/TrEMBL
  ENSSSCT00055025879.1 UniProtKB/TrEMBL
Gene3D-CATH Cytidine Deaminase, domain 2 UniProtKB/TrEMBL
InterPro APOBEC/CMP_deaminase_Zn-bd UniProtKB/TrEMBL
  CMP_dCMP_dom UniProtKB/TrEMBL
  Cyt_deam_tetra UniProtKB/TrEMBL
  Cytidine_deaminase-like UniProtKB/TrEMBL
NCBI Gene CDA ENTREZGENE
PANTHER CYTIDINE DEAMINASE UniProtKB/TrEMBL
  CYTIDINE DEAMINASE UniProtKB/TrEMBL
Pfam dCMP_cyt_deam_1 UniProtKB/TrEMBL
PROSITE CYT_DCMP_DEAMINASES_1 UniProtKB/TrEMBL
  CYT_DCMP_DEAMINASES_2 UniProtKB/TrEMBL
Superfamily-SCOP SSF53927 UniProtKB/TrEMBL
UniProt A0A8D1P6K9 ENTREZGENE, UniProtKB/TrEMBL
  I3LAH9 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:86439 ENTREZGENE