Dr1 (down-regulator of transcription 1) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Dr1 (down-regulator of transcription 1) Rattus norvegicus
Analyze
Symbol: Dr1
Name: down-regulator of transcription 1
RGD ID: 1305201
Description: Predicted to enable RNA polymerase II general transcription initiation factor activity and TBP-class protein binding activity. Predicted to be involved in several processes, including RNA polymerase II preinitiation complex assembly; negative regulation of transcription by RNA polymerase II; and regulation of embryonic development. Predicted to be located in nucleoplasm. Predicted to be part of ATAC complex; RNA polymerase II transcription regulator complex; and negative cofactor 2 complex. Orthologous to human DR1 (down-regulator of transcription 1); PARTICIPATES IN RNA polymerase II transcription initiation pathway; INTERACTS WITH 1,3-dinitrobenzene; 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: down-regulator of transcription 1, TBP-binding (negative cofactor 2); LOC100910207; LOC289881; NC2-beta; negative cofactor 2-beta; protein Dr1-like; TATA-binding protein-associated phosphoprotein
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8141,603,203 - 1,614,556 (-)NCBIGRCr8
mRatBN7.2141,458,223 - 1,469,578 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl141,458,223 - 1,469,638 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx141,339,940 - 1,351,298 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0142,641,692 - 2,653,050 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0141,338,369 - 1,349,747 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0142,463,651 - 2,475,004 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl142,463,643 - 2,474,780 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl141,621,026 - 1,632,378 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0142,462,579 - 2,473,932 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4142,005,938 - 2,017,291 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1142,005,938 - 2,017,291 (-)NCBI
Celera141,480,040 - 1,491,393 (-)NCBICelera
Cytogenetic Map14p22NCBI
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. 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. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. GOA pipeline RGD automated data pipeline
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. Comprehensive gene review and curation RGD comprehensive gene curation
7. ATAC-king the complexity of SAGA during evolution. Spedale G, etal., Genes Dev. 2012 Mar 15;26(6):527-41. doi: 10.1101/gad.184705.111.
Additional References at PubMed
PMID:12477932   PMID:15489334   PMID:18838386   PMID:19103755   PMID:20508642   PMID:36197015  


Genomics

Comparative Map Data
Dr1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8141,603,203 - 1,614,556 (-)NCBIGRCr8
mRatBN7.2141,458,223 - 1,469,578 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl141,458,223 - 1,469,638 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx141,339,940 - 1,351,298 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0142,641,692 - 2,653,050 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0141,338,369 - 1,349,747 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0142,463,651 - 2,475,004 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl142,463,643 - 2,474,780 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl141,621,026 - 1,632,378 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0142,462,579 - 2,473,932 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4142,005,938 - 2,017,291 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1142,005,938 - 2,017,291 (-)NCBI
Celera141,480,040 - 1,491,393 (-)NCBICelera
Cytogenetic Map14p22NCBI
DR1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38193,345,907 - 93,369,493 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl193,345,907 - 93,369,493 (+)EnsemblGRCh38hg38GRCh38
GRCh37193,811,464 - 93,835,050 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36193,584,066 - 93,600,737 (+)NCBINCBI36Build 36hg18NCBI36
Build 34193,523,498 - 93,540,167NCBI
Celera192,065,544 - 92,082,224 (+)NCBICelera
Cytogenetic Map1p22.1NCBI
HuRef191,933,028 - 91,949,702 (+)NCBIHuRef
CHM1_1193,926,443 - 93,943,112 (+)NCBICHM1_1
T2T-CHM13v2.0193,191,628 - 93,215,212 (+)NCBIT2T-CHM13v2.0
Dr1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395108,416,763 - 108,428,387 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl5108,416,763 - 108,428,392 (+)EnsemblGRCm39 Ensembl
GRCm385108,268,897 - 108,280,521 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5108,268,897 - 108,280,526 (+)EnsemblGRCm38mm10GRCm38
MGSCv375108,697,916 - 108,709,540 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv365108,509,199 - 108,520,823 (+)NCBIMGSCv36mm8
Celera5105,388,795 - 105,400,436 (+)NCBICelera
Cytogenetic Map5FNCBI
cM Map552.82NCBI
Dr1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554231,262,633 - 1,281,870 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554231,262,633 - 1,281,870 (-)NCBIChiLan1.0ChiLan1.0
DR1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21133,654,446 - 133,671,092 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11132,809,630 - 132,826,270 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0196,014,758 - 96,031,402 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1194,746,109 - 94,762,736 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl194,746,109 - 94,762,736 (+)Ensemblpanpan1.1panPan2
DR1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1655,687,581 - 55,717,118 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl655,693,752 - 55,716,516 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha658,394,802 - 58,423,443 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0656,062,710 - 56,091,972 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl656,066,414 - 56,091,908 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1655,742,084 - 55,770,728 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0655,726,996 - 55,756,232 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0656,180,439 - 56,209,096 (-)NCBIUU_Cfam_GSD_1.0
Dr1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405058103,094,464 - 103,112,245 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365375,835,774 - 5,853,515 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365375,835,774 - 5,853,509 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
DR1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl4123,815,461 - 123,835,825 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.14123,815,088 - 123,835,875 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.24135,471,129 - 135,491,365 (-)NCBISscrofa10.2Sscrofa10.2susScr3
DR1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12039,873,024 - 39,890,090 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2039,870,814 - 39,890,106 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603378,142,864 - 78,159,920 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Dr1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247424,263,288 - 4,282,609 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247424,263,288 - 4,282,097 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Dr1
22 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:653
Count of miRNA genes:294
Interacting mature miRNAs:382
Transcripts:ENSRNOT00000000080
Prediction methods:Microtar, Miranda, 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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2300183Bmd60Bone mineral density QTL 605.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)14126541967Rat
634352Apr6Acute phase response QTL 63.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)14141131407Rat
619619Rf4Renal disease susceptibility QTL 44.10.002urine total protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)14132754612Rat
71115Niddm15Non-insulin dependent diabetes mellitus QTL 154.8blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)14121760611030812Rat
2300159Bmd61Bone mineral density QTL 615.30.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)14126541967Rat
70204Niddm20Non-insulin dependent diabetes mellitus QTL 205.10.000008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)14121760616960180Rat

Markers in Region
RH131134  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2141,458,343 - 1,458,530 (+)MAPPERmRatBN7.2
Rnor_6.0142,463,772 - 2,463,958NCBIRnor6.0
Rnor_6.0141,621,146 - 1,621,332NCBIRnor6.0
Rnor_5.0142,462,700 - 2,462,886UniSTSRnor5.0
Rnor_5.0141,616,377 - 1,616,563UniSTSRnor5.0
RGSC_v3.4142,006,059 - 2,006,245UniSTSRGSC3.4
Celera141,480,161 - 1,480,347UniSTS
RH 3.4 Map1431.9UniSTS
Cytogenetic Map14p22UniSTS
AI179296  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2141,459,971 - 1,460,066 (+)MAPPERmRatBN7.2
Rnor_6.0142,465,400 - 2,465,494NCBIRnor6.0
Rnor_6.0141,622,774 - 1,622,868NCBIRnor6.0
Rnor_5.0142,464,328 - 2,464,422UniSTSRnor5.0
Rnor_5.0141,618,005 - 1,618,099UniSTSRnor5.0
RGSC_v3.4142,007,687 - 2,007,781UniSTSRGSC3.4
Celera141,481,789 - 1,481,883UniSTS
RH 3.4 Map1425.3UniSTS
Cytogenetic Map14p22UniSTS


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
nervous system
renal system
reproductive system
respiratory system
15 10 53 143 124 118 76 31 76 12 271 118 111 54 80 42

Sequence


Ensembl Acc Id: ENSRNOT00000000080   ⟹   ENSRNOP00000000080
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl141,458,223 - 1,469,638 (-)Ensembl
Rnor_6.0 Ensembl141,621,026 - 1,632,378 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000074874   ⟹   ENSRNOP00000064336
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl142,463,643 - 2,474,780 (-)Ensembl
RefSeq Acc Id: NM_001011914   ⟹   NP_001011914
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8141,603,203 - 1,614,556 (-)NCBI
mRatBN7.2141,458,223 - 1,469,578 (-)NCBI
Rnor_6.0142,463,651 - 2,475,004 (-)NCBI
Rnor_5.0142,462,579 - 2,473,932 (-)NCBI
RGSC_v3.4142,005,938 - 2,017,291 (-)RGD
Celera141,480,040 - 1,491,393 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001011914 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH83822 (Get FASTA)   NCBI Sequence Viewer  
  EDL84000 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000000080
GenBank Protein Q5XI68 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001011914   ⟸   NM_001011914
- UniProtKB: Q5XI68 (UniProtKB/Swiss-Prot),   A6KPG5 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000064336   ⟸   ENSRNOT00000074874
Ensembl Acc Id: ENSRNOP00000000080   ⟸   ENSRNOT00000000080
Protein Domains
Histone-fold   Transcription factor CBF/NF-Y/archaeal histone

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5XI68-F1-model_v2 AlphaFold Q5XI68 1-176 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305201 AgrOrtholog
BioCyc Gene G2FUF-16656 BioCyc
Ensembl Genes ENSRNOG00000000070 Ensembl, ENTREZGENE
  ENSRNOG00000048308 Ensembl
Ensembl Transcript ENSRNOT00000000080 ENTREZGENE
Gene3D-CATH 1.10.20.10 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7111461 IMAGE-MGC_LOAD
InterPro CBFA_NFYB_domain UniProtKB/Swiss-Prot
  Histone-fold UniProtKB/Swiss-Prot
  Ncb2 UniProtKB/Swiss-Prot
KEGG Report rno:289881 UniProtKB/Swiss-Prot
MGC_CLONE MGC:94897 IMAGE-MGC_LOAD
NCBI Gene 289881 ENTREZGENE
PANTHER PROTEIN DR1 UniProtKB/Swiss-Prot
  PTHR46138 UniProtKB/Swiss-Prot
Pfam CBFD_NFYB_HMF UniProtKB/Swiss-Prot
PhenoGen Dr1 PhenoGen
PRINTS CCAATSUBUNTA UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000000070 RatGTEx
  ENSRNOG00000048308 RatGTEx
Superfamily-SCOP SSF47113 UniProtKB/Swiss-Prot
UniProt A0A8L2PXT6_RAT UniProtKB/TrEMBL
  A6KPG5 ENTREZGENE, UniProtKB/TrEMBL
  NC2B_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Dr1  down-regulator of transcription 1  LOC100910207  protein Dr1-like  Data merged from RGD:6499394 737654 PROVISIONAL
2015-08-19 Dr1  down-regulator of transcription 1  Dr1  down-regulator of transcription 1, TBP-binding (negative cofactor 2)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-03-04 Dr1  down-regulator of transcription 1, TBP-binding (negative cofactor 2)  Dr1  down-regulator of transcription 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-07-05 LOC100910207  protein Dr1-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-12-06 Dr1  down-regulator of transcription 1  Dr1_predicted  down-regulator of transcription 1 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Dr1_predicted  down-regulator of transcription 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED