Zdhhc3 (zinc finger DHHC-type palmitoyltransferase 3) - Rat Genome Database

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Gene: Zdhhc3 (zinc finger DHHC-type palmitoyltransferase 3) Rattus norvegicus
Analyze
Symbol: Zdhhc3
Name: zinc finger DHHC-type palmitoyltransferase 3
RGD ID: 1309041
Description: Predicted to have protein homodimerization activity and protein-cysteine S-palmitoyltransferase activity. Predicted to be involved in several processes, including peptidyl-L-cysteine S-palmitoylation; positive regulation of GABAergic synaptic transmission; and protein localization to membrane. Localizes to Golgi apparatus. Orthologous to human ZDHHC3 (zinc finger DHHC-type palmitoyltransferase 3); INTERACTS WITH acrylamide; bisphenol A; endosulfan.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: acyltransferase ZDHHC3; palmitoyltransferase ZDHHC3; zinc finger DHHC domain-containing protein 3; zinc finger, DHHC domain containing 3; zinc finger, DHHC-type containing 3
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
mRatBN7.28122,725,206 - 122,773,519 (-)NCBI
Rnor_6.0 Ensembl8132,160,172 - 132,189,388 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.08132,156,216 - 132,204,484 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.08131,302,049 - 131,357,592 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48127,830,446 - 127,852,587 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.18127,850,182 - 127,887,719 (-)NCBI
Celera8121,849,329 - 121,871,457 (-)NCBICelera
Cytogenetic Map8q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

Additional References at PubMed
PMID:12163046   PMID:12477932   PMID:15603741   PMID:16647879   PMID:17151279   PMID:18596047   PMID:19001095   PMID:19946888   PMID:21926431   PMID:22240897   PMID:23034182   PMID:23687301  
PMID:23793055   PMID:25253725   PMID:27613864  


Genomics

Comparative Map Data
Zdhhc3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.28122,725,206 - 122,773,519 (-)NCBI
Rnor_6.0 Ensembl8132,160,172 - 132,189,388 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.08132,156,216 - 132,204,484 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.08131,302,049 - 131,357,592 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48127,830,446 - 127,852,587 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.18127,850,182 - 127,887,719 (-)NCBI
Celera8121,849,329 - 121,871,457 (-)NCBICelera
Cytogenetic Map8q32NCBI
ZDHHC3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl344,915,257 - 44,976,185 (-)EnsemblGRCh38hg38GRCh38
GRCh38344,915,261 - 44,976,182 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37344,956,753 - 45,017,666 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36344,941,663 - 44,992,618 (-)NCBINCBI36hg18NCBI36
Build 34344,941,664 - 44,992,618NCBI
Celera344,894,716 - 44,955,634 (-)NCBI
Cytogenetic Map3p21.31NCBI
HuRef345,000,611 - 45,061,535 (-)NCBIHuRef
CHM1_1344,906,733 - 44,967,652 (-)NCBICHM1_1
Zdhhc3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399122,895,224 - 122,942,269 (-)NCBIGRCm39mm39
GRCm39 Ensembl9122,895,225 - 122,942,270 (-)Ensembl
GRCm389123,066,159 - 123,113,194 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9123,066,160 - 123,113,205 (-)EnsemblGRCm38mm10GRCm38
MGSCv379122,981,428 - 123,022,323 (-)NCBIGRCm37mm9NCBIm37
MGSCv369122,922,851 - 122,961,790 (-)NCBImm8
Celera9123,523,626 - 123,564,430 (-)NCBICelera
Cytogenetic Map9F4NCBI
Zdhhc3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542026,698,168 - 26,733,953 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542026,698,168 - 26,736,364 (+)NCBIChiLan1.0ChiLan1.0
ZDHHC3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1345,870,877 - 45,931,744 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl345,880,773 - 45,931,695 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0344,816,359 - 44,877,318 (-)NCBIMhudiblu_PPA_v0panPan3
ZDHHC3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12043,379,669 - 43,433,101 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2043,379,722 - 43,431,414 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2043,295,300 - 43,348,695 (+)NCBI
ROS_Cfam_1.02043,864,611 - 43,918,020 (+)NCBI
UMICH_Zoey_3.12043,103,058 - 43,156,367 (+)NCBI
UNSW_CanFamBas_1.02043,510,754 - 43,563,862 (+)NCBI
UU_Cfam_GSD_1.02043,787,274 - 43,840,705 (+)NCBI
Zdhhc3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118198,424,488 - 198,479,968 (+)NCBI
SpeTri2.0NW_004936695776,822 - 830,693 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ZDHHC3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1328,098,004 - 28,176,754 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11328,100,529 - 28,176,733 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21330,988,221 - 31,054,696 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ZDHHC3
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1226,391,980 - 6,452,079 (-)NCBI
ChlSab1.1 Ensembl226,403,431 - 6,452,037 (-)Ensembl
Vero_WHO_p1.0NW_023666041160,717,177 - 160,777,284 (+)NCBI
Zdhhc3
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473075,561,842 - 75,597,867 (+)NCBI

Position Markers
RH137555  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28122,735,876 - 122,736,078 (+)MAPPER
Rnor_6.08132,166,898 - 132,167,099NCBIRnor6.0
RGSC_v3.48127,828,904 - 127,829,105UniSTSRGSC3.4
Celera8121,848,980 - 121,849,181UniSTS
Cytogenetic Map8q32UniSTS
BF416391  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28122,741,028 - 122,741,231 (+)MAPPER
Rnor_6.08132,172,050 - 132,172,252NCBIRnor6.0
Rnor_5.08131,325,353 - 131,325,555UniSTSRnor5.0
RGSC_v3.48127,835,249 - 127,835,451UniSTSRGSC3.4
Celera8121,854,133 - 121,854,335UniSTS
RH 3.4 Map81276.29UniSTS
Cytogenetic Map8q32UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61437Cia6Collagen induced arthritis QTL 6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)889058229132243842Rat
1358893Bp263Blood pressure QTL 2635.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)8100873811133307652Rat
1358903Bp252Blood pressure QTL 25270.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)8100873811133307652Rat
738011Anxrr9Anxiety related response QTL 96.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)8102051964133307652Rat
738014Anxrr15Anxiety related response QTL 153.60.005locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)8104682575133307652Rat
2300182Bmd56Bone mineral density QTL 565.4femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)8104682575133307652Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:114
Count of miRNA genes:97
Interacting mature miRNAs:106
Transcripts:ENSRNOT00000005817
Prediction methods: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 36 43 27 19 27 5 8 74 35 39 11 5
Low 7 14 14 14 3 3 2 3
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001039014 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006244188 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008766714 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008766716 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039081311 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039081312 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039081313 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039081314 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039081315 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039081316 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039081317 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC133294 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY886522 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC128697 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473954 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000200 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000005817   ⟹   ENSRNOP00000005817
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl8132,167,247 - 132,189,388 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000087427   ⟹   ENSRNOP00000071556
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl8132,160,172 - 132,178,217 (-)Ensembl
RefSeq Acc Id: NM_001039014   ⟹   NP_001034103
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28122,736,226 - 122,758,367 (-)NCBI
Rnor_6.08132,167,247 - 132,189,388 (-)NCBI
Rnor_5.08131,302,049 - 131,357,592 (-)NCBI
RGSC_v3.48127,830,446 - 127,852,587 (-)RGD
Celera8121,849,329 - 121,871,457 (-)RGD
Sequence:
RefSeq Acc Id: XM_006244188   ⟹   XP_006244250
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28122,735,826 - 122,773,518 (-)NCBI
Rnor_6.08132,166,848 - 132,204,484 (-)NCBI
Rnor_5.08131,302,049 - 131,357,592 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008766714   ⟹   XP_008764936
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28122,725,206 - 122,773,519 (-)NCBI
Rnor_6.08132,156,216 - 132,204,483 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008766716   ⟹   XP_008764938
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.08132,156,216 - 132,204,446 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039081311   ⟹   XP_038937239
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28122,725,206 - 122,773,483 (-)NCBI
RefSeq Acc Id: XM_039081312   ⟹   XP_038937240
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28122,725,206 - 122,773,484 (-)NCBI
RefSeq Acc Id: XM_039081313   ⟹   XP_038937241
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28122,725,206 - 122,763,312 (-)NCBI
RefSeq Acc Id: XM_039081314   ⟹   XP_038937242
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28122,725,206 - 122,773,483 (-)NCBI
RefSeq Acc Id: XM_039081315   ⟹   XP_038937243
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28122,725,206 - 122,749,232 (-)NCBI
RefSeq Acc Id: XM_039081316   ⟹   XP_038937244
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28122,725,206 - 122,758,175 (-)NCBI
RefSeq Acc Id: XM_039081317   ⟹   XP_038937245
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28122,725,206 - 122,747,052 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001034103   ⟸   NM_001039014
- UniProtKB: Q2TGK3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006244250   ⟸   XM_006244188
- Peptide Label: isoform X4
- UniProtKB: Q2TGK3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008764936   ⟸   XM_008766714
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_008764938   ⟸   XM_008766716
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000071556   ⟸   ENSRNOT00000087427
RefSeq Acc Id: ENSRNOP00000005817   ⟸   ENSRNOT00000005817
RefSeq Acc Id: XP_038937240   ⟸   XM_039081312
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038937242   ⟸   XM_039081314
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038937239   ⟸   XM_039081311
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038937241   ⟸   XM_039081313
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038937244   ⟸   XM_039081316
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038937243   ⟸   XM_039081315
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038937245   ⟸   XM_039081317
- Peptide Label: isoform X5
Protein Domains
DHHC

Transcriptome

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


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)
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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
MHS/Gib (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
MNS/Gib (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
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
Damaging Variants


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
8 131331484 131331485 C T snv ACI/EurMcwi (MCW), ZFDM (KyushuU), GH/OmrMcwi (MCW), SBH/Ygl (MCW), FHH/EurMcwi (MCW), SS/JrHsdMcwi (MCW), SDLEF7/Barth (UDEL), LE/OrlBarth (UDEL), Crl:SD (UDEL), IS/Kyo (KyushuU), BUF/MNa (KyushuU), NIG-III/Hok (KyushuU), F344/DuCrlCrlj (KyushuU), LE/Stm (KyushuU), HTX/Kyo (KyushuU), F344/NSlc (KyushuU), RCS/Kyo (KyushuU), IS-Tlk/Kyo (KyushuU), F344/Stm (KyushuU), HWY/Slc (KyushuU), LEC/Tj (KyushuU), F344/Jcl (KyushuU), BDIX/NemOda (KyushuU), DOB/Oda (KyushuU), BDIX.Cg-Tal/NemOda (KyushuU), KFRS3B/Kyo (KyushuU), ZF (KyushuU), COP/CrCrl (MCW & UW)
8 131342441 131342442 T A snv ACI/EurMcwi (MCW), COP/CrCrl (MCW & UW), GH/OmrMcwi (MCW), SBH/Ygl (MCW), FHH/EurMcwi (MCW), FHL/EurMcwi (MCW), SBN/Ygl (MCW), SR/JrHsd (MCW), SS/JrHsdMcwi (MCW), SDLEF7/Barth (UDEL), IS/Kyo (KyushuU), BUF/MNa (KyushuU), NIG-III/Hok (KyushuU), F344/DuCrlCrlj (KyushuU), LE/Stm (KyushuU), HTX/Kyo (KyushuU), F344/NSlc (KyushuU), BN/SsNSlc (KyushuU), RCS/Kyo (KyushuU), IS-Tlk/Kyo (KyushuU), F344/Stm (KyushuU), HWY/Slc (KyushuU), LEC/Tj (KyushuU), F344/Jcl (KyushuU), BDIX/NemOda (KyushuU), DOB/Oda (KyushuU), BDIX.Cg-Tal/NemOda (KyushuU), KFRS3B/Kyo (KyushuU), ZF (KyushuU), ZFDM (KyushuU)
8 131342470 131342471 A T snv ACI/EurMcwi (MCW), ZF (KyushuU), KFRS3B/Kyo (KyushuU), BDIX.Cg-Tal/NemOda (KyushuU), DOB/Oda (KyushuU), BDIX/NemOda (KyushuU), F344/Jcl (KyushuU), LEC/Tj (KyushuU), HWY/Slc (KyushuU), F344/Stm (KyushuU), IS-Tlk/Kyo (KyushuU), RCS/Kyo (KyushuU), BN/SsNSlc (KyushuU), F344/NSlc (KyushuU), HTX/Kyo (KyushuU), LE/Stm (KyushuU), F344/DuCrlCrlj (KyushuU), NIG-III/Hok (KyushuU), BUF/MNa (KyushuU), IS/Kyo (KyushuU), SDLEF7/Barth (UDEL), SS/JrHsdMcwi (MCW), SR/JrHsd (MCW), SBN/Ygl (MCW), FHL/EurMcwi (MCW), FHH/EurMcwi (MCW), SBH/Ygl (MCW), GH/OmrMcwi (MCW), COP/CrCrl (MCW & UW), ZFDM (KyushuU)
8 131342587 131342588 G A snv BDIX.Cg-Tal/NemOda (KyushuU), ACI/EurMcwi (MCW), HWY/Slc (KyushuU), F344/DuCrlCrlj (KyushuU), NIG-III/Hok (KyushuU), DOB/Oda (KyushuU), F344/Stm (KyushuU), BUF/MNa (KyushuU), IS/Kyo (KyushuU), ZFDM (KyushuU), LE/OrlBarth (UDEL), IS-Tlk/Kyo (KyushuU), SDLEF7/Barth (UDEL), SS/JrHsdMcwi (MCW), BDIX/NemOda (KyushuU), SR/JrHsd (MCW), RCS/Kyo (KyushuU), KFRS3B/Kyo (KyushuU), SBN/Ygl (MCW), F344/Jcl (KyushuU), FHL/EurMcwi (MCW), BN/SsNSlc (KyushuU), FHH/EurMcwi (MCW), SBH/Ygl (MCW), F344/NSlc (KyushuU), GH/OmrMcwi (MCW), ZF (KyushuU), LEC/Tj (KyushuU), COP/CrCrl (MCW & UW), HTX/Kyo (KyushuU), LE/Stm (KyushuU)


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
8 132178181 132178182 C T snv SBN/Ygl (RGD), ACI/EurMcwi (RGD), MNS/Gib (RGD), SBH/Ygl (RGD), WN/N (MCW), SBH/Ygl (MCW), LN/MavRrrc (RGD), LH/MavRrrc (RGD), LEW/Crl (RGD), LE/Stm (RGD), F344/NCrl (RGD), BBDP/Wor (RGD), FHL/EurMcwi (MCW), SBN/Ygl (MCW), COP/CrCrl (MCW & UW), SR/JrHsd (MCW), ACI/EurMcwi (MCW), SS/JrHsdMcwi (MCW), GH/OmrMcwi (MCW), CDR, CDS, SR/JrHsd (RGD)
8 132189065 132189066 G A snv ACI/EurMcwi (MCW), COP/CrCrl (MCW & UW), MNS/Gib (RGD)
8 132189138 132189139 T A snv WN/N (MCW), BN/SsN (MCW), CDS, CDR, SS/JrHsdMcwi (MCW), SBN/Ygl (MCW), FHL/EurMcwi (MCW), SBH/Ygl (MCW), GH/OmrMcwi (MCW), COP/CrCrl (MCW & UW), ACI/EurMcwi (MCW)
8 132189167 132189168 A T snv ACI/EurMcwi (MCW), COP/CrCrl (MCW & UW), GH/OmrMcwi (MCW), SBH/Ygl (MCW), FHH/EurMcwi (MCW), FHL/EurMcwi (MCW), SBN/Ygl (MCW), SR/JrHsd (MCW), SS/JrHsdMcwi (MCW), CDR, CDS, ACI/N (MCW), Buf/N (MCW), M520/N (MCW), MR/N (MCW), WKY/N (MCW), WN/N (MCW)
8 132189245 132189246 C G snv CDS, CDR
8 132189267 132189268 C T snv COP/CrCrl (MCW & UW), SR/JrHsd (MCW), CDS, ACI/EurMcwi (MCW), SS/JrHsdMcwi (MCW), SBN/Ygl (MCW), FHH/EurMcwi (MCW), CDR, SBH/Ygl (MCW), GH/OmrMcwi (MCW)
8 132189284 132189285 G A snv FHH/EurMcwi (MCW), SBN/Ygl (MCW), SR/JrHsd (MCW), CDR, SS/JrHsdMcwi (MCW), COP/CrCrl (MCW & UW), SBH/Ygl (MCW), GH/OmrMcwi (MCW), CDS, FHL/EurMcwi (MCW), ACI/EurMcwi (MCW)
8 132189341 132189342 T G snv SR/JrHsd (MCW)
8 132189359 132189360 A T snv SS/JrHsdMcwi (MCW), SR/JrHsd (MCW), SBN/Ygl (MCW), FHL/EurMcwi (MCW), FHH/EurMcwi (MCW), SBH/Ygl (MCW), CDR, GH/OmrMcwi (MCW), COP/CrCrl (MCW & UW), ACI/EurMcwi (MCW), CDS, WKY/N (MCW), LE/Stm (RGD), LH/MavRrrc (RGD), MHS/Gib (RGD), SBN/Ygl (RGD), WKY/Gcrc (RGD)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
8 127841380 127841381 C T snv SR/JrHsd (MCW), LCR/2Mco (UMich), HCR/2Mco (UMich), HCR/1Mco (UMich), GH/OmrMcwi (MCW), COP/CrCrl (MCW & UW), SS/JrHsdMcwi (MCW), FHH/EurMcwi (MCW), ACI/EurMcwi (MCW), WN/N (KNAW), LE/Stm (KNAW)
8 127852337 127852338 T A snv WN/N (KNAW), LCR/1Mco (UMich), BN/SsN (KNAW), LE/Stm (KNAW), HCR/1Mco (UMich), LCR/2Mco (UMich), HCR/2Mco (UMich), GH/OmrMcwi (MCW), COP/CrCrl (MCW & UW), SS/JrHsdMcwi (MCW), SR/JrHsd (MCW), FHL/EurMcwi (MCW), FHH/EurMcwi (MCW), ACI/EurMcwi (MCW)
8 127852366 127852367 A T snv SR/JrHsd (MCW), ACI/N (KNAW), WKY/N (KNAW), ACI/EurMcwi (MCW), BUF/N (KNAW), FHH/EurMcwi (MCW), LCR/2Mco (UMich), FHL/EurMcwi (MCW), WN/N (KNAW), HCR/1Mco (UMich), LCR/1Mco (UMich), GH/OmrMcwi (MCW), LE/Stm (KNAW), SS/JrHsdMcwi (MCW), MR/N (KNAW), COP/CrCrl (MCW & UW), M520/N (KNAW), HCR/2Mco (UMich), BN/NHsdMcwi (KNAW)
8 127852483 127852484 G A snv LCR/1Mco (UMich), HCR/1Mco (UMich), SR/JrHsd (MCW), FHH/EurMcwi (MCW), ACI/EurMcwi (MCW), LCR/2Mco (UMich), SS/JrHsdMcwi (MCW), FHL/EurMcwi (MCW), HCR/2Mco (UMich), GH/OmrMcwi (MCW), COP/CrCrl (MCW & UW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1309041 AgrOrtholog
Ensembl Genes ENSRNOG00000004344 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000005817 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000071556 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000005817 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000087427 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7444822 IMAGE-MGC_LOAD
InterPro Palmitoyltrfase_DHHC UniProtKB/Swiss-Prot
KEGG Report rno:301081 UniProtKB/Swiss-Prot
MGC_CLONE MGC:156471 IMAGE-MGC_LOAD
NCBI Gene 301081 ENTREZGENE
Pfam DHHC UniProtKB/Swiss-Prot
PhenoGen Zdhhc3 PhenoGen
PROSITE DHHC UniProtKB/Swiss-Prot
UniProt A0A0G2K0R8_RAT UniProtKB/TrEMBL
  Q2TGK3 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-11-11 Zdhhc3  zinc finger DHHC-type palmitoyltransferase 3  Zdhhc3  zinc finger, DHHC-type containing 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-11-17 Zdhhc3  zinc finger, DHHC-type containing 3  Zdhhc3  zinc finger, DHHC domain containing 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 Zdhhc3  zinc finger, DHHC domain containing 3  Zdhhc3_predicted  zinc finger, DHHC domain containing 3 (predicted)  Symbol and Name status set to approved 1299863 APPROVED
2005-01-12 Zdhhc3_predicted  zinc finger, DHHC domain containing 3 (predicted)      Symbol and Name status set to approved 70820 APPROVED