Dnajb6 (DnaJ heat shock protein family (Hsp40) member B6) - Rat Genome Database
Submit Data |  Help |  Video Tutorials |  News |  Publications |  FTP Download |  REST API |  Citing RGD |  Contact   
Gene: Dnajb6 (DnaJ heat shock protein family (Hsp40) member B6) Rattus norvegicus
Analyze
Symbol: Dnajb6
Name: DnaJ heat shock protein family (Hsp40) member B6
RGD ID: 1308207
Description: Predicted to have several functions, including ATPase activator activity; chaperone binding activity; and unfolded protein binding activity. Predicted to be involved in several processes, including cytoskeleton organization; labyrinthine layer development; and negative regulation of nitrogen compound metabolic process. Predicted to localize to several cellular components, including Z disc; nucleoplasm; and perinuclear region of cytoplasm. Human ortholog(s) of this gene implicated in autosomal dominant limb-girdle muscular dystrophy type 1. Orthologous to human DNAJB6 (DnaJ heat shock protein family (Hsp40) member B6); INTERACTS WITH 2,4-dinitrotoluene; 3-methylcholanthrene; alpha-naphthoflavone.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: DnaJ (Hsp40) homolog, subfamily B, member 6; dnaJ homolog subfamily B member 6; heat shock protein J2; HSJ-2; hsp40 homolog; LOC362293; MRJ; MSJ-1
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
mRatBN7.245,452,683 - 5,556,679 (-)NCBI
Rnor_6.0 Ensembl42,711,385 - 2,774,890 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.042,711,329 - 2,774,969 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.042,761,321 - 2,825,374 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44732,491 - 796,237 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.14732,490 - 796,237 (-)NCBI
Celera44,760,011 - 4,823,483 (+)NCBICelera
Cytogenetic Map4q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
1-chloro-2,4-dinitrobenzene  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
1H-pyrazole  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4-dinitrotoluene  (EXP)
2-methylcholine  (ISO)
3,3',4,4'-tetrachlorobiphenyl  (ISO)
3-methylcholanthrene  (EXP)
4-(ethoxymethylene)-2-phenyloxazol-5-one  (ISO)
7,12-dimethyltetraphene  (ISO)
acrolein  (ISO)
aflatoxin B1  (ISO)
alpha-naphthoflavone  (EXP)
alpha-pinene  (ISO)
arsenous acid  (ISO)
benzo[a]pyrene  (ISO)
benzo[e]pyrene  (ISO)
bezafibrate  (ISO)
bisphenol A  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
captan  (ISO)
carbamazepine  (ISO)
chenodeoxycholic acid  (ISO)
clofibrate  (ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
CU-O LINKAGE  (ISO)
cyclophosphamide  (ISO)
cyclosporin A  (ISO)
deoxycholic acid  (ISO)
diarsenic trioxide  (ISO)
diclofenac  (ISO)
dioxygen  (ISO)
disulfiram  (ISO)
dorsomorphin  (ISO)
entinostat  (ISO)
ethanol  (ISO)
fenofibrate  (ISO)
folic acid  (ISO)
folpet  (ISO)
genistein  (ISO)
gentamycin  (EXP)
glycochenodeoxycholic acid  (ISO)
glycocholic acid  (ISO)
glycodeoxycholic acid  (ISO)
gold atom  (ISO)
gold(0)  (ISO)
isobutanol  (ISO)
isoflavones  (ISO)
lead diacetate  (ISO)
maneb  (ISO)
methapyrilene  (ISO)
motexafin gadolinium  (ISO)
nickel dichloride  (ISO)
nickel sulfate  (ISO)
nonanoic acid  (ISO)
ochratoxin A  (EXP)
organoselenium compound  (ISO)
ozone  (ISO)
paracetamol  (ISO)
paraquat  (ISO)
phlorizin  (ISO)
piroxicam  (ISO)
potassium chromate  (ISO)
SB 431542  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (ISO)
sodium fluoride  (ISO)
tamoxifen  (ISO)
toluene 2,4-diisocyanate  (ISO)
triphenyl phosphate  (EXP)
urethane  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
zinc acetate  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

References

Additional References at PubMed
PMID:10021343   PMID:10954706   PMID:11896048   PMID:16260608   PMID:18373498   PMID:19946888   PMID:20889486   PMID:21231916   PMID:21630459   PMID:21972064   PMID:22366786   PMID:26476842  
PMID:30053369  


Genomics

Comparative Map Data
Dnajb6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.245,452,683 - 5,556,679 (-)NCBI
Rnor_6.0 Ensembl42,711,385 - 2,774,890 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.042,711,329 - 2,774,969 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.042,761,321 - 2,825,374 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44732,491 - 796,237 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.14732,490 - 796,237 (-)NCBI
Celera44,760,011 - 4,823,483 (+)NCBICelera
Cytogenetic Map4q11NCBI
DNAJB6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl7157,335,381 - 157,417,439 (+)EnsemblGRCh38hg38GRCh38
GRCh387157,337,004 - 157,417,439 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh377157,129,692 - 157,210,133 (+)NCBIGRCh37GRCh37hg19GRCh37
GRCh377157,129,698 - 157,210,133 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 367156,822,471 - 156,902,894 (+)NCBINCBI36hg18NCBI36
Build 347156,629,186 - 156,709,608NCBI
Celera7151,556,757 - 151,637,136 (+)NCBI
Cytogenetic Map7q36.3NCBI
HuRef7150,859,705 - 150,940,410 (+)NCBIHuRef
CHM1_17157,138,219 - 157,218,641 (+)NCBICHM1_1
CRA_TCAGchr7v27156,359,018 - 156,439,320 (+)NCBI
Dnajb6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39529,940,896 - 29,991,476 (+)NCBIGRCm39mm39
GRCm38529,735,898 - 29,786,478 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl529,735,688 - 29,818,134 (+)EnsemblGRCm38mm10GRCm38
MGSCv37530,062,438 - 30,113,018 (+)NCBIGRCm37mm9NCBIm37
MGSCv36530,066,727 - 30,117,265 (+)NCBImm8
Celera527,252,388 - 27,302,966 (+)NCBICelera
Cytogenetic Map5B1NCBI
Dnajb6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_004955579240,058 - 298,592 (+)NCBIChiLan1.0ChiLan1.0
DNAJB6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.17160,646,321 - 160,726,447 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl7160,646,321 - 160,726,447 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v07148,952,823 - 149,034,578 (+)NCBIMhudiblu_PPA_v0panPan3
DNAJB6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl1619,768,639 - 19,848,139 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.11619,792,957 - 19,849,299 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dnajb6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_004936797332,962 - 377,397 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
DNAJB6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl181,444,737 - 1,630,889 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1181,444,737 - 1,499,904 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2181,404,687 - 1,481,281 (-)NCBISscrofa10.2Sscrofa10.2susScr3
DNAJB6
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.121125,455,782 - 125,544,495 (+)NCBI
ChlSab1.1 Ensembl21125,469,957 - 125,544,820 (+)Ensembl
Dnajb6
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248001,174,703 - 1,234,661 (-)NCBI

Position Markers
RH132724  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.042,774,785 - 2,774,934NCBIRnor6.0
Rnor_5.042,825,190 - 2,825,339UniSTSRnor5.0
RGSC_v3.44732,448 - 732,597UniSTSRGSC3.4
Celera44,823,377 - 4,823,526UniSTS
Cytogenetic Map4q11UniSTS
RH143603  
Rat AssemblyChrPosition (strand)SourceJBrowse
Celera44,823,242 - 4,823,425UniSTS
Cytogenetic Map4q11UniSTS
RH138190  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.042,728,307 - 2,728,476NCBIRnor6.0
Rnor_5.042,778,712 - 2,778,881UniSTSRnor5.0
RGSC_v3.44778,906 - 779,075UniSTSRGSC3.4
Celera44,776,942 - 4,777,111UniSTS
Cytogenetic Map4q11UniSTS
RH140222  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.01230,524,704 - 230,524,892UniSTSRnor5.0
Rnor_5.042,799,437 - 2,799,627UniSTSRnor5.0
RGSC_v3.44758,160 - 758,350UniSTSRGSC3.4
RGSC_v3.41210,490,707 - 210,490,895UniSTSRGSC3.4
Celera44,797,633 - 4,797,823UniSTS
Celera660,295,525 - 60,295,709UniSTS
Celera1202,516,329 - 202,516,517UniSTS
RH 3.4 Map51155.1UniSTS
Cytogenetic Map4q11UniSTS
Cytogenetic Map1q43UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61408Scl23Serum cholesterol level QTL 230.0005blood HDL phospholipid amount (VT:0010504)serum high density lipoprotein phospholipid level (CMO:0001567)4125545519Rat
724557Plsm1Polydactyly-luxate syndrome (PLS) morphotypes QTL 10.0003forelimb integrity trait (VT:0010562)front foot phalanges count (CMO:0001947)4125545519Rat
61351Bp33Blood pressure QTL 330.0018arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)4125545519Rat
1641905Colcr1Colorectal carcinoma resistance QTL 14.30.0003intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)4126654881Rat
61333Gluco16Glucose level QTL 164.30.00001adipocyte glucose uptake trait (VT:0004185)absolute change in adipocyte glucose uptake (CMO:0000873)4126803291Rat
9589046Scfw2Subcutaneous fat weight QTL 25.540.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)4128352196Rat
9589097Slep11Serum leptin concentration QTL 115.090.001blood leptin amount (VT:0005667)plasma leptin level (CMO:0000781)4128352196Rat
9590100Sffal4Serum free fatty acids level QTL 47.360.05blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)4128352196Rat
8552903Pigfal2Plasma insulin-like growth factor 1 level QTL 27.3blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)4128352196Rat
1357343Gluco4Glucose level QTL 40.00002adipocyte glucose uptake trait (VT:0004185)adipocyte maximal glucose uptake to basal glucose uptake ratio (CMO:0000874)4129778604Rat
1357341Gluco5Glucose level QTL 56.4adipocyte free fatty acid secretion trait (VT:0010465)absolute change in adipocyte free fatty acid secretion per unit volume (CMO:0001446)4129778604Rat
738021Hcar13Hepatocarcinoma resistance QTL 134.3liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)4131554484Rat
634323Hc2Hypercalciuria QTL 22.15urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)4142118977Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:568
Count of miRNA genes:277
Interacting mature miRNAs:360
Transcripts:ENSRNOT00000035996
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.


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 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000035996   ⟹   ENSRNOP00000041883
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl42,711,385 - 2,774,890 (+)Ensembl
RefSeq Acc Id: NM_001013209   ⟹   NP_001013227
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.245,493,119 - 5,556,631 (-)NCBI
Rnor_6.042,711,385 - 2,774,891 (+)NCBI
Rnor_5.042,761,321 - 2,825,374 (+)NCBI
RGSC_v3.44732,491 - 796,237 (-)RGD
Celera44,760,011 - 4,823,483 (+)RGD
Sequence:
RefSeq Acc Id: XM_006235863   ⟹   XP_006235925
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.245,497,648 - 5,556,679 (-)NCBI
Rnor_6.042,711,333 - 2,770,362 (+)NCBI
Rnor_5.042,761,321 - 2,825,374 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006235864   ⟹   XP_006235926
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.245,497,648 - 5,556,671 (-)NCBI
Rnor_6.042,711,333 - 2,770,362 (+)NCBI
Rnor_5.042,761,321 - 2,825,374 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006235866   ⟹   XP_006235928
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.245,493,041 - 5,556,679 (-)NCBI
Rnor_6.042,711,336 - 2,774,969 (+)NCBI
Rnor_5.042,761,321 - 2,825,374 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017592676   ⟹   XP_017448165
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.245,536,781 - 5,556,679 (-)NCBI
Rnor_6.042,711,329 - 2,732,435 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039107734   ⟹   XP_038963662
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.245,536,781 - 5,556,671 (-)NCBI
RefSeq Acc Id: XM_039107735   ⟹   XP_038963663
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.245,498,589 - 5,556,679 (-)NCBI
RefSeq Acc Id: XM_039107736   ⟹   XP_038963664
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.245,507,767 - 5,556,679 (-)NCBI
RefSeq Acc Id: XM_039107737   ⟹   XP_038963665
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.245,452,686 - 5,556,679 (-)NCBI
RefSeq Acc Id: XR_005503245
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.245,452,683 - 5,556,679 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001013227   ⟸   NM_001013209
- UniProtKB: Q6AYU3 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006235926   ⟸   XM_006235864
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006235925   ⟸   XM_006235863
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006235928   ⟸   XM_006235866
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017448165   ⟸   XM_017592676
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000041883   ⟸   ENSRNOT00000035996
RefSeq Acc Id: XP_038963665   ⟸   XM_039107737
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038963663   ⟸   XM_039107735
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038963664   ⟸   XM_039107736
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038963662   ⟸   XM_039107734
- Peptide Label: isoform X2
Protein Domains
J

Transcriptome

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

Promoters
RGD ID:13692775
Promoter ID:EPDNEW_R3299
Type:initiation region
Name:Dnajb6_1
Description:DnaJ heat shock protein family member B6
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_6.042,711,387 - 2,711,447EPDNEW

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)
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
SBH/Ygl (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: SBH/Ygl sequenced by MCW
SBH/Ygl (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
SBN/Ygl (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: SBN/Ygl sequenced by MCW
SBN/Ygl (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
SHR/NHsd (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
SHRSP/Gcrc (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
SR/JrHsd (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: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (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
SS/Jr (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
SS/JrHsdMcwi (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)
SS/JrHsdMcwi (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
WAG/Rij (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
WKY/Gcrc (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
WKY/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
WKY/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
WKY/NHsd (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
WN/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
Damaging Variants


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
4 2799029 2799030 C T snv SBH/Ygl (MCW), SS/JrHsdMcwi (MCW), SR/JrHsd (MCW), SBN/Ygl (MCW)


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
4 2737831 2737832 T C snv M520/N (MCW), WKY/N (MCW), Buf/N (MCW), MR/N (MCW), ACI/N (MCW)
4 2770093 2770094 C T snv WKY/N (MCW), MR/N (MCW), WN/N (MCW), ACI/N (MCW), M520/N (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1308207 AgrOrtholog
Ensembl Genes ENSRNOG00000010353 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000041883 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000035996 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 1.10.287.110 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7113862 IMAGE-MGC_LOAD
InterPro DnaJ_domain UniProtKB/Swiss-Prot
  DnaJ_domain_CS UniProtKB/Swiss-Prot
  J_dom_sf UniProtKB/Swiss-Prot
KEGG Report rno:362293 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93667 IMAGE-MGC_LOAD
NCBI Gene 362293 ENTREZGENE
Pfam DnaJ UniProtKB/Swiss-Prot
PhenoGen Dnajb6 PhenoGen
PRINTS JDOMAIN UniProtKB/Swiss-Prot
PROSITE DNAJ_1 UniProtKB/Swiss-Prot
  DNAJ_2 UniProtKB/Swiss-Prot
SMART DnaJ UniProtKB/Swiss-Prot
Superfamily-SCOP SSF46565 UniProtKB/Swiss-Prot
UniProt DNJB6_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-11-25 Dnajb6  DnaJ heat shock protein family (Hsp40) member B6  Dnajb6  DnaJ (Hsp40) homolog, subfamily B, member 6  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Dnajb6  DnaJ (Hsp40) homolog, subfamily B, member 6  Dnajb6_predicted  DnaJ (Hsp40) homolog, subfamily B, member 6 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Dnajb6_predicted  DnaJ (Hsp40) homolog, subfamily B, member 6 (predicted)      Symbol and Name status set to approved 70820 APPROVED