Sec63 (SEC63 homolog, protein translocation regulator) - Rat Genome Database

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Gene: Sec63 (SEC63 homolog, protein translocation regulator) Rattus norvegicus
Analyze
Symbol: Sec63
Name: SEC63 homolog, protein translocation regulator
RGD ID: 1304984
Description: Predicted to enable RNA binding activity and protein transmembrane transporter activity. Predicted to be involved in SRP-dependent cotranslational protein targeting to membrane and posttranslational protein targeting to membrane, translocation. Predicted to act upstream of or within liver development; multicellular organism aging; and nitrogen compound metabolic process. Predicted to be located in endoplasmic reticulum and membrane. Predicted to be part of Sec62/Sec63 complex. Human ortholog(s) of this gene implicated in polycystic liver disease. Orthologous to human SEC63 (SEC63 homolog, protein translocation regulator); PARTICIPATES IN Endoplasmic Reticulum-associated degradation pathway; INTERACTS WITH 2,4-dinitrotoluene; 2,6-dinitrotoluene; acrylamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: LOC309858; SEC63 homolog; SEC63 homolog (S. cerevisiae); SEC63-like; SEC63-like (S. cerevisiae) ; SEC63-like protein; translocation protein SEC63 homolog
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
mRatBN7.22046,245,101 - 46,314,055 (+)NCBI
Rnor_6.0 Ensembl2047,494,270 - 47,563,222 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02047,494,270 - 47,563,222 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02049,156,193 - 49,225,366 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42046,669,125 - 46,738,077 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12046,693,553 - 46,762,289 (+)NCBI
Celera2053,663,315 - 53,732,035 (-)NCBICelera
Cytogenetic Map20q13NCBI
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

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:21685914   PMID:22375059   PMID:22658674   PMID:29719251  


Genomics

Comparative Map Data
Sec63
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22046,245,101 - 46,314,055 (+)NCBI
Rnor_6.0 Ensembl2047,494,270 - 47,563,222 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02047,494,270 - 47,563,222 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02049,156,193 - 49,225,366 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42046,669,125 - 46,738,077 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12046,693,553 - 46,762,289 (+)NCBI
Celera2053,663,315 - 53,732,035 (-)NCBICelera
Cytogenetic Map20q13NCBI
SEC63
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl6107,867,756 - 107,958,208 (-)EnsemblGRCh38hg38GRCh38
GRCh386107,867,756 - 107,958,208 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh376108,188,960 - 108,279,412 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 366108,298,215 - 108,386,086 (-)NCBINCBI36hg18NCBI36
Build 346108,298,214 - 108,386,086NCBI
Celera6108,935,760 - 109,025,964 (-)NCBI
Cytogenetic Map6q21NCBI
HuRef6105,758,265 - 105,848,248 (-)NCBIHuRef
CHM1_16108,451,504 - 108,542,131 (-)NCBICHM1_1
Sec63
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391042,637,492 - 42,708,510 (+)NCBIGRCm39mm39
GRCm39 Ensembl1042,637,492 - 42,708,510 (+)Ensembl
GRCm381042,761,496 - 42,832,514 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1042,761,496 - 42,832,514 (+)EnsemblGRCm38mm10GRCm38
MGSCv371042,481,302 - 42,552,320 (+)NCBIGRCm37mm9NCBIm37
MGSCv361042,450,141 - 42,517,702 (+)NCBImm8
Celera1043,628,635 - 43,699,289 (+)NCBICelera
Cytogenetic Map10B2NCBI
cM Map1022.89NCBI
Sec63
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541133,063,989 - 33,126,105 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541133,063,056 - 33,126,325 (-)NCBIChiLan1.0ChiLan1.0
SEC63
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.16109,536,790 - 109,620,748 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl6109,538,184 - 109,595,518 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v06105,673,265 - 105,757,422 (-)NCBIMhudiblu_PPA_v0panPan3
SEC63
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11264,983,442 - 65,028,573 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1264,770,434 - 64,844,883 (-)NCBI
ROS_Cfam_1.01265,829,612 - 65,904,228 (-)NCBI
UMICH_Zoey_3.11265,185,870 - 65,260,323 (-)NCBI
UNSW_CanFamBas_1.01265,031,615 - 65,106,070 (-)NCBI
UU_Cfam_GSD_1.01265,305,260 - 65,379,711 (-)NCBI
Sec63
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494699,904,722 - 99,947,041 (-)NCBI
SpeTri2.0NW_0049365644,182,330 - 4,221,927 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SEC63
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl174,000,684 - 74,078,582 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1174,003,428 - 74,078,605 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2183,274,127 - 83,349,307 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SEC63
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11365,902,796 - 65,993,092 (+)NCBI
ChlSab1.1 Ensembl1365,902,956 - 65,996,514 (+)Ensembl
Vero_WHO_p1.0NW_02366604038,236,474 - 38,324,301 (+)NCBI
Sec63
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462478014,322,651 - 14,405,674 (+)NCBI

Position Markers
D20Rat16  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22046,266,352 - 46,266,514 (+)MAPPER
Rnor_6.02047,515,521 - 47,515,682NCBIRnor6.0
Rnor_5.02049,177,445 - 49,177,606UniSTSRnor5.0
RGSC_v3.42046,690,375 - 46,690,537RGDRGSC3.4
RGSC_v3.42046,690,376 - 46,690,537UniSTSRGSC3.4
RGSC_v3.12046,714,579 - 46,714,741RGD
Celera2053,710,623 - 53,710,784UniSTS
RH 2.0 Map20568.0RGD
FHH x ACI Map2031.8299RGD
Cytogenetic Map20q13UniSTS
BE105041  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22046,310,669 - 46,310,827 (+)MAPPER
Rnor_6.02047,559,837 - 47,559,994NCBIRnor6.0
Rnor_5.02049,221,981 - 49,222,138UniSTSRnor5.0
RGSC_v3.42046,734,692 - 46,734,849UniSTSRGSC3.4
Celera2053,666,543 - 53,666,700UniSTS
RH 3.4 Map20490.83UniSTS
Cytogenetic Map20q13UniSTS
RH134694  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22046,313,665 - 46,313,854 (+)MAPPER
Rnor_6.02047,562,833 - 47,563,021NCBIRnor6.0
Rnor_5.02049,224,977 - 49,225,165UniSTSRnor5.0
RGSC_v3.42046,737,688 - 46,737,876UniSTSRGSC3.4
Celera2053,663,516 - 53,663,704UniSTS
RH 3.4 Map20490.84UniSTS
Cytogenetic Map20q13UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
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

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:463
Count of miRNA genes:251
Interacting mature miRNAs:331
Transcripts:ENSRNOT00000036365
Prediction methods:Miranda, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


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 34 57 41 19 41 1 2 74 35 41 11 1
Low 9 7 9 7
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000036365   ⟹   ENSRNOP00000035059
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2047,494,270 - 47,563,222 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000087718   ⟹   ENSRNOP00000069126
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2047,494,424 - 47,559,979 (+)Ensembl
RefSeq Acc Id: NM_001107637   ⟹   NP_001101107
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22046,245,101 - 46,314,055 (+)NCBI
Rnor_6.02047,494,270 - 47,563,222 (+)NCBI
Rnor_5.02049,156,193 - 49,225,366 (+)NCBI
RGSC_v3.42046,669,125 - 46,738,077 (+)RGD
Celera2053,663,315 - 53,732,035 (-)RGD
Sequence:
RefSeq Acc Id: XM_006256570   ⟹   XP_006256632
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22046,245,186 - 46,314,053 (+)NCBI
Rnor_6.02047,494,380 - 47,563,220 (+)NCBI
Rnor_5.02049,156,193 - 49,225,366 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006256571   ⟹   XP_006256633
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22046,245,185 - 46,310,614 (+)NCBI
Rnor_6.02047,494,379 - 47,563,220 (+)NCBI
Rnor_5.02049,156,193 - 49,225,366 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001101107 (Get FASTA)   NCBI Sequence Viewer  
  XP_006256632 (Get FASTA)   NCBI Sequence Viewer  
  XP_006256633 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL99699 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001101107   ⟸   NM_001107637
- UniProtKB: D4A2Z6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006256632   ⟸   XM_006256570
- Peptide Label: isoform X1
- UniProtKB: A0A0G2JUJ9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006256633   ⟸   XM_006256571
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000069126   ⟸   ENSRNOT00000087718
RefSeq Acc Id: ENSRNOP00000035059   ⟸   ENSRNOT00000036365
Protein Domains
J

Transcriptome

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

Promoters
RGD ID:13701674
Promoter ID:EPDNEW_R12195
Type:initiation region
Name:Sec63_1
Description:SEC63 homolog, protein translocation regulator
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_6.02047,494,382 - 47,494,442EPDNEW

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)
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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:1304984 AgrOrtholog
Ensembl Genes ENSRNOG00000000314 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000035059 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000069126 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000036365 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000087718 UniProtKB/TrEMBL
Gene3D-CATH 1.10.287.110 UniProtKB/TrEMBL
  2.60.40.150 UniProtKB/TrEMBL
InterPro C2_domain_sf UniProtKB/TrEMBL
  DnaJ_dom_sf UniProtKB/TrEMBL
  DnaJ_N UniProtKB/TrEMBL
  Ig_E-set UniProtKB/TrEMBL
  Sec63 UniProtKB/TrEMBL
  Sec63-dom UniProtKB/TrEMBL
KEGG Report rno:309858 UniProtKB/TrEMBL
NCBI Gene 309858 ENTREZGENE
PANTHER PTHR24075:SF0 UniProtKB/TrEMBL
Pfam DnaJ UniProtKB/TrEMBL
  Sec63 UniProtKB/TrEMBL
PhenoGen Sec63 PhenoGen
PRINTS DNAJPROTEIN UniProtKB/TrEMBL
PROSITE DNAJ_2 UniProtKB/TrEMBL
SMART DnaJ UniProtKB/TrEMBL
  Sec63 UniProtKB/TrEMBL
Superfamily-SCOP DnaJ_N UniProtKB/TrEMBL
  SSF81296 UniProtKB/TrEMBL
UniProt A0A0G2JUJ9 ENTREZGENE, UniProtKB/TrEMBL
  D4A2Z6 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-08-11 Sec63  SEC63 homolog, protein translocation regulator  Sec63  SEC63 homolog (S. cerevisiae)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-11-20 Sec63  SEC63 homolog (S. cerevisiae)  Sec63  SEC63-like (S. cerevisiae)   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Sec63  SEC63-like (S. cerevisiae)   Sec63_predicted  SEC63-like (S. cerevisiae) (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Sec63_predicted  SEC63-like (S. cerevisiae) (predicted)      Symbol and Name status set to approved 70820 APPROVED