Ddb1 (damage specific DNA binding protein 1) - Rat Genome Database

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Gene: Ddb1 (damage specific DNA binding protein 1) Chinchilla lanigera
Analyze
Symbol: Ddb1
Name: damage specific DNA binding protein 1
RGD ID: 8743020
Description: ENCODES a protein that exhibits cullin family protein binding (ortholog); damaged DNA binding (ortholog); protein-containing complex binding (ortholog); INVOLVED IN apoptotic process (ortholog); biological process involved in interaction with symbiont (ortholog); cellular response to UV (ortholog); PARTICIPATES IN altered nucleotide excision repair pathway; nucleotide excision repair pathway; ASSOCIATED WITH Chemical and Drug Induced Liver Injury (ortholog); communication disorder (ortholog); congenital heart disease (ortholog); FOUND IN Cul4-RING E3 ubiquitin ligase complex (ortholog); Cul4A-RING E3 ubiquitin ligase complex (ortholog); Cul4B-RING E3 ubiquitin ligase complex (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: damage-specific DNA binding protein 1, 127kDa; DNA damage-binding protein 1
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555116,209,777 - 6,233,594 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555116,209,777 - 6,233,594 (+)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Ddb1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555116,209,777 - 6,233,594 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555116,209,777 - 6,233,594 (+)NCBIChiLan1.0ChiLan1.0
DDB1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381161,299,451 - 61,333,105 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1161,299,451 - 61,342,596 (-)EnsemblGRCh38hg38GRCh38
GRCh371161,066,923 - 61,100,577 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361160,823,495 - 60,857,242 (-)NCBINCBI36Build 36hg18NCBI36
Build 341160,823,499 - 60,857,125NCBI
Cytogenetic Map11q12.2NCBI
HuRef1157,394,763 - 57,428,510 (-)NCBIHuRef
CHM1_11160,949,958 - 60,983,704 (-)NCBICHM1_1
T2T-CHM13v2.01161,288,439 - 61,322,058 (-)NCBIT2T-CHM13v2.0
Ddb1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391910,582,961 - 10,607,186 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1910,582,691 - 10,607,183 (+)EnsemblGRCm39 Ensembl
GRCm381910,605,568 - 10,629,828 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1910,605,327 - 10,629,819 (+)EnsemblGRCm38mm10GRCm38
MGSCv371910,680,115 - 10,704,312 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361910,672,670 - 10,696,867 (+)NCBIMGSCv36mm8
Celera1911,301,601 - 11,325,808 (+)NCBICelera
Cytogenetic Map19ANCBI
cM Map196.66NCBI
Ddb1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81216,677,810 - 216,703,605 (+)NCBIGRCr8
mRatBN7.21207,252,890 - 207,278,685 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1207,252,890 - 207,278,676 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1215,631,459 - 215,657,329 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01222,687,016 - 222,712,802 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01215,382,012 - 215,407,798 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01226,657,561 - 226,683,356 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1226,657,561 - 226,683,347 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01233,603,490 - 233,629,285 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41213,095,187 - 213,120,986 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1204,746,264 - 204,772,059 (+)NCBICelera
Cytogenetic Map1q43NCBI
DDB1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2962,467,451 - 62,501,152 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11163,511,126 - 63,544,583 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01156,599,422 - 56,633,140 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11159,964,235 - 59,997,805 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1159,964,235 - 59,997,805 (-)Ensemblpanpan1.1panPan2
DDB1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11855,064,720 - 55,097,623 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1855,064,729 - 55,097,627 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1853,637,465 - 53,670,146 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01856,112,716 - 56,145,419 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1856,112,714 - 56,167,311 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11855,170,743 - 55,203,394 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01854,792,588 - 54,825,289 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01855,673,233 - 55,706,147 (+)NCBIUU_Cfam_GSD_1.0
Ddb1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494711,596,653 - 11,628,774 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365811,710,382 - 1,742,598 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365811,710,382 - 1,742,598 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
DDB1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl210,171,502 - 10,201,598 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1210,171,554 - 10,201,602 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.229,718,733 - 9,748,620 (+)NCBISscrofa10.2Sscrofa10.2susScr3
DDB1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1112,508,712 - 12,543,127 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl112,508,443 - 12,544,913 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666038109,887,958 - 109,922,218 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ddb1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624926871,000 - 897,777 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624926871,003 - 893,902 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSCLAT00000005921   ⟹   ENSCLAP00000005820
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_0049555116,209,777 - 6,233,594 (+)Ensembl
RefSeq Acc Id: XM_005408163   ⟹   XP_005408220
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049555116,209,777 - 6,233,594 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005408220 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCLAP00000005820
  ENSCLAP00000005820.1
RefSeq Acc Id: XP_005408220   ⟸   XM_005408163
- UniProtKB: A0A8C2UVB3 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSCLAP00000005820   ⟸   ENSCLAT00000005921

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000004126 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000005921 ENTREZGENE
  ENSCLAT00000005921.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.150.910 UniProtKB/TrEMBL
  2.130.10.10 UniProtKB/TrEMBL
InterPro Cleavage/polyA-sp_fac_asu_C UniProtKB/TrEMBL
  Cleavage/polyA-sp_fac_asu_N UniProtKB/TrEMBL
  Quinoprotein_ADH-like_supfam UniProtKB/TrEMBL
  RSE1/DDB1/CFT1/CPSF1 UniProtKB/TrEMBL
  WD40/YVTN_repeat-like_dom_sf UniProtKB/TrEMBL
NCBI Gene Ddb1 ENTREZGENE
PANTHER DNA REPAIR/RNA PROCESSING CPSF FAMILY UniProtKB/TrEMBL
Pfam CPSF_A UniProtKB/TrEMBL
  MMS1_N UniProtKB/TrEMBL
Superfamily-SCOP SSF50998 UniProtKB/TrEMBL
UniProt A0A8C2UVB3 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-08-03 Ddb1  damage specific DNA binding protein 1    damage-specific DNA binding protein 1, 127kDa  Symbol and/or name change 5135510 APPROVED