DDB1 (damage specific DNA binding protein 1) - Rat Genome Database

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Gene: DDB1 (damage specific DNA binding protein 1) Sus scrofa
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Symbol: DDB1
Name: damage specific DNA binding protein 1
RGD ID: 13983628
Description: ENCODES a protein that exhibits damaged DNA binding (ortholog); INVOLVED IN apoptotic process (ortholog); cellular response to UV (ortholog); ectopic germ cell programmed cell death (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 nucleolus (ortholog); nucleus (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: DNA damage-binding protein 1
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 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
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
Additional References at PubMed
PMID:14681463   PMID:17145712   PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
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
(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
(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
(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
(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

Variants

.
Variants in DDB1
987 total Variants

Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
circulatory system
ectoderm
endocrine system
endoderm
hemolymphoid system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
10 4 23 3 2 5 14 12 23 3 6 3

Sequence


Ensembl Acc Id: ENSSSCT00000014314   ⟹   ENSSSCP00000013928
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl210,171,502 - 10,201,598 (+)Ensembl
Ensembl Acc Id: ENSSSCT00000095456   ⟹   ENSSSCP00000080929
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl210,171,502 - 10,201,598 (+)Ensembl
Ensembl Acc Id: ENSSSCT00000095943   ⟹   ENSSSCP00000077433
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl210,171,502 - 10,201,598 (+)Ensembl
Ensembl Acc Id: ENSSSCT00000096741   ⟹   ENSSSCP00000077599
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl210,171,502 - 10,201,598 (+)Ensembl
Ensembl Acc Id: ENSSSCT00000096830   ⟹   ENSSSCP00000076342
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl210,171,502 - 10,201,598 (+)Ensembl
RefSeq Acc Id: XM_003122651   ⟹   XP_003122699
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1210,171,554 - 10,201,602 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_003122699 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSSCP00000013928
  ENSSSCP00000013928.4
  ENSSSCP00000076342.1
  ENSSSCP00000077433.1
  ENSSSCP00000077599.1
  ENSSSCP00000080929.1
  ENSSSCP00025048598.1
  ENSSSCP00070042793.1
RefSeq Acc Id: XP_003122699   ⟸   XM_003122651
- UniProtKB: F1RIE2 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSSSCP00000013928   ⟸   ENSSSCT00000014314
Ensembl Acc Id: ENSSSCP00000076342   ⟸   ENSSSCT00000096830
Ensembl Acc Id: ENSSSCP00000077433   ⟸   ENSSSCT00000095943
Ensembl Acc Id: ENSSSCP00000077599   ⟸   ENSSSCT00000096741
Ensembl Acc Id: ENSSSCP00000080929   ⟸   ENSSSCT00000095456

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000013094 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00025077456 UniProtKB/TrEMBL
  ENSSSCG00070025325 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000014314 ENTREZGENE
  ENSSSCT00000014314.5 UniProtKB/TrEMBL
  ENSSSCT00000095456.1 UniProtKB/TrEMBL
  ENSSSCT00000095943.1 UniProtKB/TrEMBL
  ENSSSCT00000096741.1 UniProtKB/TrEMBL
  ENSSSCT00000096830.1 UniProtKB/TrEMBL
  ENSSSCT00025107668.1 UniProtKB/TrEMBL
  ENSSSCT00070050627.1 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
  WD40_repeat_dom_sf UniProtKB/TrEMBL
KEGG Report ssc:100522239 UniProtKB/TrEMBL
NCBI Gene DDB1 ENTREZGENE
PANTHER DNA REPAIR/RNA PROCESSING CPSF FAMILY UniProtKB/TrEMBL
  PTHR10644:SF3 UniProtKB/TrEMBL
Pfam CPSF_A UniProtKB/TrEMBL
  MMS1_N UniProtKB/TrEMBL
Superfamily-SCOP SSF50978 UniProtKB/TrEMBL
  SSF50998 UniProtKB/TrEMBL
UniProt A0A4X1VLC3_PIG UniProtKB/TrEMBL
  A0A8W4FAP7_PIG UniProtKB/TrEMBL
  A0A8W4FDP5_PIG UniProtKB/TrEMBL
  A0A8W4FE65_PIG UniProtKB/TrEMBL
  A0A8W4FNJ8_PIG UniProtKB/TrEMBL
  F1RIE2 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:87202 ENTREZGENE