Dcbld1 (discoidin, CUB and LCCL domain containing 1) - Rat Genome Database

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Gene: Dcbld1 (discoidin, CUB and LCCL domain containing 1) Rattus norvegicus
Analyze
Symbol: Dcbld1
Name: discoidin, CUB and LCCL domain containing 1
RGD ID: 1307211
Description: Predicted to have serine-type endopeptidase activity. Predicted to be involved in zymogen activation. Predicted to localize to blood microparticle. Orthologous to human DCBLD1 (discoidin, CUB and LCCL domain containing 1); INTERACTS WITH 17beta-estradiol; amphetamine; bisphenol A.
Type: protein-coding
RefSeq Status: MODEL
Also known as: discoidin, CUB and LCCL domain containing 1; discoidin, CUB and LCCL domain-containing protein 1; LOC309773
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22031,618,556 - 31,711,697 (+)NCBI
Rnor_6.0 Ensembl2033,359,196 - 33,453,766 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02033,359,062 - 33,455,161 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02035,139,064 - 35,233,838 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42030,945,776 - 31,038,692 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12031,031,260 - 31,051,759 (+)NCBI
Celera2033,016,305 - 33,109,071 (+)NCBICelera
Cytogenetic Map20q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References


Genomics

Comparative Map Data
Dcbld1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22031,618,556 - 31,711,697 (+)NCBI
Rnor_6.0 Ensembl2033,359,196 - 33,453,766 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02033,359,062 - 33,455,161 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02035,139,064 - 35,233,838 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42030,945,776 - 31,038,692 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12031,031,260 - 31,051,759 (+)NCBI
Celera2033,016,305 - 33,109,071 (+)NCBICelera
Cytogenetic Map20q11NCBI
DCBLD1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl6117,453,817 - 117,569,858 (+)EnsemblGRCh38hg38GRCh38
GRCh386117,480,351 - 117,569,858 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh376117,803,837 - 117,891,021 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 366117,910,513 - 117,997,714 (+)NCBINCBI36hg18NCBI36
Build 346117,910,512 - 117,997,711NCBI
Celera6118,546,716 - 118,633,918 (+)NCBI
Cytogenetic Map6q22.1NCBI
HuRef6115,384,015 - 115,471,652 (+)NCBIHuRef
CHM1_16118,067,745 - 118,154,964 (+)NCBICHM1_1
Dcbld1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391052,109,674 - 52,197,474 (+)NCBIGRCm39mm39
GRCm39 Ensembl1052,109,715 - 52,197,474 (+)Ensembl
GRCm381052,233,578 - 52,321,378 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1052,233,619 - 52,321,378 (+)EnsemblGRCm38mm10GRCm38
MGSCv371051,953,425 - 52,041,183 (+)NCBIGRCm37mm9NCBIm37
MGSCv361051,922,034 - 52,008,690 (+)NCBImm8
Celera1053,070,785 - 53,158,787 (+)NCBICelera
Cytogenetic Map10B3NCBI
Dcbld1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955436668,509 - 750,236 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955436688,546 - 726,952 (+)NCBIChiLan1.0ChiLan1.0
DCBLD1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.16119,434,847 - 119,499,514 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl6119,434,847 - 119,519,282 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v06115,290,931 - 115,358,249 (+)NCBIMhudiblu_PPA_v0panPan3
DCBLD1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1157,733,681 - 57,809,624 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl157,716,008 - 57,799,929 (+)NCBICanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha158,512,102 - 58,610,154 (+)NCBI
ROS_Cfam_1.0157,892,944 - 57,991,163 (+)NCBI
UMICH_Zoey_3.1157,794,065 - 57,892,541 (+)NCBI
UNSW_CanFamBas_1.0157,635,303 - 57,733,506 (+)NCBI
UU_Cfam_GSD_1.0158,266,418 - 58,364,684 (+)NCBI
Dcbld1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404946108,440,398 - 108,500,671 (+)NCBI
SpeTri2.0NW_004936658547,245 - 606,540 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
DCBLD1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl144,276,675 - 44,374,143 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1144,301,108 - 44,373,712 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2149,645,883 - 49,718,886 (-)NCBISscrofa10.2Sscrofa10.2susScr3
DCBLD1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11356,280,884 - 56,346,779 (-)NCBI
ChlSab1.1 Ensembl1356,280,888 - 56,346,610 (-)Ensembl
Dcbld1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462479812,231,258 - 12,303,658 (-)NCBI

Position Markers
D20Rat22  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22031,614,284 - 31,614,507 (+)MAPPER
Rnor_6.02033,354,783 - 33,355,005NCBIRnor6.0
Rnor_5.02035,134,762 - 35,134,984UniSTSRnor5.0
RGSC_v3.42030,941,363 - 30,941,585UniSTSRGSC3.4
RGSC_v3.42030,941,362 - 30,941,585RGDRGSC3.4
RGSC_v3.12030,955,163 - 30,955,385RGD
Celera2033,012,026 - 33,012,248UniSTS
RH 3.4 Map20316.5RGD
RH 3.4 Map20316.5UniSTS
RH 2.0 Map20333.2RGD
SHRSP x BN Map2022.43RGD
FHH x ACI Map2014.6699RGD
Cytogenetic Map20q11UniSTS
D20Got32  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22031,614,283 - 31,614,397 (+)MAPPER
Rnor_6.02033,354,782 - 33,354,895NCBIRnor6.0
Rnor_5.02035,134,761 - 35,134,874UniSTSRnor5.0
RGSC_v3.42030,941,361 - 30,941,475RGDRGSC3.4
RGSC_v3.42030,941,362 - 30,941,475UniSTSRGSC3.4
RGSC_v3.12030,955,162 - 30,955,275RGD
Celera2033,012,025 - 33,012,138UniSTS
RH 3.4 Map20292.2UniSTS
RH 3.4 Map20292.2RGD
RH 2.0 Map20308.6RGD
Cytogenetic Map20q11UniSTS
AI008992  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22031,709,154 - 31,709,370 (+)MAPPER
Rnor_6.02033,452,621 - 33,452,836NCBIRnor6.0
Rnor_5.02035,231,520 - 35,231,735UniSTSRnor5.0
RGSC_v3.42031,036,814 - 31,037,029UniSTSRGSC3.4
Celera2033,106,531 - 33,106,746UniSTS
RH 3.4 Map20311.14UniSTS
Cytogenetic Map20q11UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20137550487Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20137550487Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20201865447018654Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20299970747999707Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance in proximity to the target during voluntary locomotion in an experimental apparatus (CMO:0002674)20410895649108956Rat
9590092Insglur9Insulin/glucose ratio QTL 918.380.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)201383430956205956Rat
7411652Foco24Food consumption QTL 240.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)201383430956205956Rat
2317880Alcrsp25Alcohol response QTL 252.3response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)201782709656205956Rat
4889610Pancm3Pancreatic morphology QTL 33.750.001pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)201887215049108956Rat
2303626Vencon10Ventilatory control QTL 100.001respiration trait (VT:0001943)respiration rate (CMO:0000289)202085847056205956Rat
2303578Gluco50Glucose level QTL 502blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)202660884356205956Rat
2303587Bw93Body weight QTL 9313body mass (VT:0001259)body weight (CMO:0000012)202660884356205956Rat
2300188Bmd68Bone mineral density QTL 686.40.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)202660884356205956Rat
1331747Hrtrt16Heart rate QTL 163.163heart pumping trait (VT:2000009)heart rate (CMO:0000002)202671232356205956Rat
1598869Memor6Memory QTL 63.1exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)203091348156205956Rat
70158Bp60Blood pressure QTL 603arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)203335478345719230Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:226
Count of miRNA genes:94
Interacting mature miRNAs:101
Transcripts:ENSRNOT00000000462, ENSRNOT00000074758
Prediction methods:Microtar, Miranda, Rnahybrid, 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.


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 26 6 6 6 51 33 29 11
Low 17 51 35 19 35 8 11 23 2 10 8
Below cutoff 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000000462   ⟹   ENSRNOP00000000462
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2033,359,196 - 33,453,766 (+)Ensembl
RefSeq Acc Id: XM_001058071   ⟹   XP_001058071
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera2033,016,306 - 33,109,071 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017588069   ⟹   XP_017443558
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera2033,016,305 - 33,109,071 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017601807   ⟹   XP_017457296
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.02033,359,062 - 33,455,161 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039099381   ⟹   XP_038955309
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22031,687,337 - 31,711,697 (+)NCBI
RefSeq Acc Id: XM_039099382   ⟹   XP_038955310
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22031,687,337 - 31,711,697 (+)NCBI
RefSeq Acc Id: XM_228172   ⟹   XP_228172
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22031,618,556 - 31,711,697 (+)NCBI
Rnor_6.02033,359,063 - 33,455,161 (+)NCBI
Rnor_5.02035,139,064 - 35,233,838 (+)NCBI
RGSC_v3.42030,945,776 - 31,038,692 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs XP_038955309 (Get FASTA)   NCBI Sequence Viewer  
  XP_038955310 (Get FASTA)   NCBI Sequence Viewer  
  XP_228172 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL92941 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_001058071   ⟸   XM_001058071
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_228172   ⟸   XM_228172
- Peptide Label: isoform X1
- UniProtKB: D3ZFM7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017443558   ⟸   XM_017588069
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017457296   ⟸   XM_017601807
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000000462   ⟸   ENSRNOT00000000462
RefSeq Acc Id: XP_038955309   ⟸   XM_039099381
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038955310   ⟸   XM_039099382
- Peptide Label: isoform X3
Protein Domains
CUB   LCCL

Transcriptome

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

Promoters
RGD ID:13701630
Promoter ID:EPDNEW_R12147
Type:initiation region
Name:Dcbld1_1
Description:discoidin, CUB and LCCL domain containing 1
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_6.02033,359,137 - 33,359,197EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1307211 AgrOrtholog
Ensembl Genes ENSRNOG00000000407 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000000462 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000000462 UniProtKB/TrEMBL
Gene3D-CATH 2.170.130.20 UniProtKB/TrEMBL
  2.60.120.290 UniProtKB/TrEMBL
InterPro CUB_dom UniProtKB/TrEMBL
  LCCL UniProtKB/TrEMBL
  LCCL_sf UniProtKB/TrEMBL
  sperma_CUB_dom UniProtKB/TrEMBL
KEGG Report rno:309773 UniProtKB/TrEMBL
NCBI Gene 309773 ENTREZGENE
Pfam CUB UniProtKB/TrEMBL
  LCCL UniProtKB/TrEMBL
PhenoGen Dcbld1 PhenoGen
PROSITE CUB UniProtKB/TrEMBL
  LCCL UniProtKB/TrEMBL
SMART CUB UniProtKB/TrEMBL
  LCCL UniProtKB/TrEMBL
Superfamily-SCOP CUB UniProtKB/TrEMBL
  LCCL UniProtKB/TrEMBL
UniProt D3ZFM7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Dcbld1  discoidin, CUB and LCCL domain containing 1   Dcbld1_predicted  discoidin, CUB and LCCL domain containing 1 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Dcbld1_predicted  discoidin, CUB and LCCL domain containing 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED