Dgcr8 (DGCR8 microprocessor complex subunit) - Rat Genome Database

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Gene: Dgcr8 (DGCR8 microprocessor complex subunit) Rattus norvegicus
Analyze
Symbol: Dgcr8
Name: DGCR8 microprocessor complex subunit
RGD ID: 1306365
Description: Predicted to enable several functions, including RNA binding activity; heme binding activity; and protein homodimerization activity. Predicted to be involved in positive regulation of pre-miRNA processing and primary miRNA processing. Predicted to act upstream of or within regulation of stem cell proliferation. Predicted to be located in cytosol and nuclear body. Predicted to be part of microprocessor complex. Predicted to be active in glutamatergic synapse and postsynaptic density. Human ortholog(s) of this gene implicated in alcohol dependence. Orthologous to human DGCR8 (DGCR8 microprocessor complex subunit); PARTICIPATES IN microRNA pathway; INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: DiGeorge syndrome critical region gene 8; LOC287954; microprocessor complex subunit DGCR8
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81196,208,959 - 96,241,560 (+)NCBIGRCr8
mRatBN7.21182,704,673 - 82,737,251 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1182,704,729 - 82,737,242 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1191,433,115 - 91,465,628 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01184,094,345 - 84,126,856 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01183,147,858 - 83,180,371 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01186,852,682 - 86,885,233 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1186,852,711 - 86,885,224 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01189,946,649 - 89,979,171 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41184,698,795 - 84,731,041 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11184,739,438 - 84,770,066 (+)NCBI
Celera1181,481,738 - 81,514,247 (+)NCBICelera
Cytogenetic Map11q23NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

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. Association of microRNA biogenesis pathway gene variants and alcohol dependence risk. Gedik H, etal., DNA Cell Biol. 2015 Mar;34(3):220-6. doi: 10.1089/dna.2014.2549. Epub 2014 Dec 11.
3. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
4. The widespread regulation of microRNA biogenesis, function and decay. Krol J, etal., Nat Rev Genet. 2010 Sep;11(9):597-610. Epub 2010 Jul 27.
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
Additional References at PubMed
PMID:15531877   PMID:15574589   PMID:17159994   PMID:17704815   PMID:21609717   PMID:22897173   PMID:24449907   PMID:24910438   PMID:28819115   PMID:34413501   PMID:36222340  


Genomics

Comparative Map Data
Dgcr8
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81196,208,959 - 96,241,560 (+)NCBIGRCr8
mRatBN7.21182,704,673 - 82,737,251 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1182,704,729 - 82,737,242 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1191,433,115 - 91,465,628 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01184,094,345 - 84,126,856 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01183,147,858 - 83,180,371 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01186,852,682 - 86,885,233 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1186,852,711 - 86,885,224 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01189,946,649 - 89,979,171 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41184,698,795 - 84,731,041 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11184,739,438 - 84,770,066 (+)NCBI
Celera1181,481,738 - 81,514,247 (+)NCBICelera
Cytogenetic Map11q23NCBI
DGCR8
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382220,080,241 - 20,111,872 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2220,080,221 - 20,111,877 (+)EnsemblGRCh38hg38GRCh38
GRCh372220,067,764 - 20,099,395 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362218,447,834 - 18,479,400 (+)NCBINCBI36Build 36hg18NCBI36
Build 342218,442,387 - 18,473,952NCBI
Celera223,919,807 - 3,951,450 (+)NCBICelera
Cytogenetic Map22q11.21NCBI
HuRef223,688,418 - 3,720,061 (+)NCBIHuRef
CHM1_12220,067,440 - 20,099,084 (+)NCBICHM1_1
T2T-CHM13v2.02220,459,152 - 20,490,922 (+)NCBIT2T-CHM13v2.0
Dgcr8
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391618,071,812 - 18,107,115 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1618,071,812 - 18,107,110 (-)EnsemblGRCm39 Ensembl
GRCm381618,253,948 - 18,289,251 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1618,253,948 - 18,289,246 (-)EnsemblGRCm38mm10GRCm38
MGSCv371618,254,057 - 18,289,261 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361618,167,527 - 18,202,731 (-)NCBIMGSCv36mm8
Celera1618,826,710 - 18,861,913 (-)NCBICelera
Cytogenetic Map16A3NCBI
cM Map1611.31NCBI
Dgcr8
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544217,998,565 - 18,030,831 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495544217,998,565 - 18,034,247 (-)NCBIChiLan1.0ChiLan1.0
DGCR8
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22329,707,454 - 29,738,975 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12232,254,342 - 32,285,490 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0222,841,041 - 2,872,325 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12218,518,789 - 18,544,740 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2218,518,783 - 18,544,740 (+)Ensemblpanpan1.1panPan2
DGCR8
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ROS_Cfam_1.02630,628,666 - 30,665,068 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2630,628,671 - 30,665,046 (-)EnsemblROS_Cfam_1.0 Ensembl
Dgcr8
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118138,725,854 - 138,776,754 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366194,020,815 - 4,030,465 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0 EnsemblNW_0049366193,977,144 - 4,014,273 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366193,977,307 - 4,014,490 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
DGCR8
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1451,469,178 - 51,489,529 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11451,473,512 - 51,489,535 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21455,110,551 - 55,126,577 (+)NCBISscrofa10.2Sscrofa10.2susScr3
DGCR8
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1195,627,924 - 5,657,773 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl195,629,684 - 5,652,191 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660851,275,885 - 1,305,869 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Dgcr8
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624747689,955 - 722,266 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624747689,751 - 722,266 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Dgcr8
47 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:244
Count of miRNA genes:152
Interacting mature miRNAs:198
Transcripts:ENSRNOT00000002581
Prediction methods: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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)111897620886241447Rat
724563Uae10Urinary albumin excretion QTL 106urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)112767241082846715Rat
1581565Pur10Proteinuria QTL 100.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)114480331882846466Rat
1581572Uae35Urinary albumin excretion QTL 350.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)114480331882846466Rat
724561Plsm4Polydactyly-luxate syndrome (PLS) morphotypes QTL 40.0003forelimb integrity trait (VT:0010562)front foot phalanges count (CMO:0001947)115445753486241447Rat
4889521Gluco62Glucose level QTL 622.820.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)115513672982993457Rat
7411658Foco27Food consumption QTL 2716.20.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)115635142486241447Rat
10058954Gmadr7Adrenal mass QTL 72.490.0049adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)116034659086241447Rat
634339Niddm50Non-insulin dependent diabetes mellitus QTL 503.32blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)116642214886241447Rat
1354593Stl12Serum triglyceride level QTL 123.36blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)116642214886241447Rat
1354656Bvd3Brain ventricular dilatation QTL 33.640.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)116944607082846715Rat
10450831Scl80Serum cholesterol level QTL 804.70.01blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)117695713183051965Rat
2302043Pia27Pristane induced arthritis QTL 2718.60.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)118256654583440803Rat

Markers in Region
Dgcr8  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21182,709,638 - 82,710,077 (+)MAPPERmRatBN7.2
Rnor_6.01186,857,621 - 86,858,059NCBIRnor6.0
Rnor_5.01189,951,559 - 89,951,997UniSTSRnor5.0
RGSC_v3.41184,703,705 - 84,704,143UniSTSRGSC3.4
Celera1181,486,648 - 81,487,086UniSTS
Cytogenetic Map11q23UniSTS
RH138951  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21182,704,220 - 82,704,375 (+)MAPPERmRatBN7.2
Rnor_6.01186,852,203 - 86,852,357NCBIRnor6.0
Rnor_5.01189,946,141 - 89,946,295UniSTSRnor5.0
RGSC_v3.41184,698,287 - 84,698,441UniSTSRGSC3.4
Celera1181,481,230 - 81,481,384UniSTS
RH 3.4 Map11701.0UniSTS
Cytogenetic Map11q23UniSTS
AU049586  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21182,723,972 - 82,724,139 (+)MAPPERmRatBN7.2
Rnor_6.01186,871,955 - 86,872,121NCBIRnor6.0
Rnor_5.01189,965,893 - 89,966,059UniSTSRnor5.0
RGSC_v3.41184,718,039 - 84,718,205UniSTSRGSC3.4
Celera1181,500,982 - 81,501,148UniSTS
Cytogenetic Map11q23UniSTS
UniSTS:237454  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21182,736,937 - 82,737,161 (+)MAPPERmRatBN7.2
Rnor_6.01186,884,920 - 86,885,143NCBIRnor6.0
Rnor_5.01189,978,858 - 89,979,081UniSTSRnor5.0
RGSC_v3.41184,730,737 - 84,730,960UniSTSRGSC3.4
Celera1181,513,943 - 81,514,166UniSTS
Cytogenetic Map11q23UniSTS


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 exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 29 38 22 19 22 2 2 74 31 38 11 2
Low 14 19 19 19 6 9 4 3 6
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000002581   ⟹   ENSRNOP00000002581
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1182,704,729 - 82,737,242 (+)Ensembl
Rnor_6.0 Ensembl1186,852,711 - 86,885,224 (+)Ensembl
RefSeq Acc Id: NM_001105865   ⟹   NP_001099335
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81196,209,038 - 96,241,551 (+)NCBI
mRatBN7.21182,704,729 - 82,737,242 (+)NCBI
Rnor_6.01186,852,711 - 86,885,224 (+)NCBI
Rnor_5.01189,946,649 - 89,979,171 (+)NCBI
RGSC_v3.41184,698,795 - 84,731,041 (+)RGD
Celera1181,481,738 - 81,514,247 (+)RGD
Sequence:
RefSeq Acc Id: XM_006248606   ⟹   XP_006248668
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81196,208,959 - 96,241,560 (+)NCBI
mRatBN7.21182,704,677 - 82,737,251 (+)NCBI
Rnor_6.01186,852,682 - 86,885,233 (+)NCBI
Rnor_5.01189,946,649 - 89,979,171 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039088081   ⟹   XP_038944009
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81196,209,326 - 96,241,560 (+)NCBI
mRatBN7.21182,705,005 - 82,736,951 (+)NCBI
RefSeq Acc Id: XM_039088082   ⟹   XP_038944010
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81196,208,959 - 96,241,560 (+)NCBI
mRatBN7.21182,704,676 - 82,736,951 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_001099335   ⟸   NM_001105865
- UniProtKB: D4A2G4 (UniProtKB/TrEMBL),   A6JSH6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006248668   ⟸   XM_006248606
- Peptide Label: isoform X1
- UniProtKB: D4A2G4 (UniProtKB/TrEMBL),   A6JSH6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000002581   ⟸   ENSRNOT00000002581
RefSeq Acc Id: XP_038944010   ⟸   XM_039088082
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038944009   ⟸   XM_039088081
- Peptide Label: isoform X1
- UniProtKB: D4A2G4 (UniProtKB/TrEMBL),   A6JSH6 (UniProtKB/TrEMBL)
Protein Domains
DRBM   WW

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A2G4-F1-model_v2 AlphaFold D4A2G4 1-773 view protein structure

Transcriptome

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

Promoters
RGD ID:13698306
Promoter ID:EPDNEW_R8830
Type:initiation region
Name:Dgcr8_1
Description:DGCR8 microprocessor complex subunit
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_6.01186,852,720 - 86,852,780EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306365 AgrOrtholog
BioCyc Gene G2FUF-20652 BioCyc
Ensembl Genes ENSRNOG00000001886 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000002581 ENTREZGENE
  ENSRNOT00000002581.6 UniProtKB/TrEMBL
Gene3D-CATH 2.20.70.10 UniProtKB/TrEMBL
  3.30.160.20 UniProtKB/TrEMBL
  3.30.160.590 UniProtKB/TrEMBL
InterPro DGCR8 UniProtKB/TrEMBL
  dsRNA-bd-like UniProtKB/TrEMBL
  WW_dom_sf UniProtKB/TrEMBL
  WW_Rsp5_WWP UniProtKB/TrEMBL
KEGG Report rno:287954 UniProtKB/TrEMBL
NCBI Gene 287954 ENTREZGENE
PANTHER MICROPROCESSOR COMPLEX SUBUNIT DGCR8 UniProtKB/TrEMBL
  PTHR13482 UniProtKB/TrEMBL
Pfam dsrm UniProtKB/TrEMBL
PhenoGen Dgcr8 PhenoGen
PROSITE DS_RBD UniProtKB/TrEMBL
  WW_DOMAIN_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000001886 RatGTEx
SMART DSRM UniProtKB/TrEMBL
  SM00456 UniProtKB/TrEMBL
Superfamily-SCOP dsRNA-binding domain-like UniProtKB/TrEMBL
  SSF51045 UniProtKB/TrEMBL
UniProt A6JSH6 ENTREZGENE, UniProtKB/TrEMBL
  D4A2G4 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-06-08 Dgcr8  DGCR8 microprocessor complex subunit  Dgcr8  DiGeorge syndrome critical region gene 8  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Dgcr8  DiGeorge syndrome critical region gene 8   Dgcr8_predicted  DiGeorge syndrome critical region gene 8 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Dgcr8_predicted  DiGeorge syndrome critical region gene 8 (predicted)      Symbol and Name status set to approved 70820 APPROVED