Rest (RE1-silencing transcription factor) - Rat Genome Database

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Gene: Rest (RE1-silencing transcription factor) Rattus norvegicus
Analyze
Symbol: Rest
Name: RE1-silencing transcription factor
RGD ID: 621069
Description: Exhibits DNA-binding transcription repressor activity, RNA polymerase II-specific; sequence-specific DNA binding activity; and transcription factor binding activity. Involved in several processes, including negative regulation of cellular biosynthetic process; negative regulation of dense core granule biogenesis; and response to ischemia. Localizes to chromatin; nucleus; and transcription repressor complex. Human ortholog(s) of this gene implicated in autosomal dominant nonsyndromic deafness 27; gingival fibromatosis 5; and nephroblastoma. Orthologous to human REST (RE1 silencing transcription factor); PARTICIPATES IN Huntington's disease pathway; INTERACTS WITH (+)-schisandrin B; 1,2-dimethylhydrazine; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: neural-restrictive silencer factor; Nrsf; zinc finger transcription factor REST protein
RGD Orthologs
Human
Mouse
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
mRatBN7.21430,859,109 - 30,879,828 (-)NCBI
Rnor_6.0 Ensembl1433,134,511 - 33,164,141 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01433,131,985 - 33,152,019 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01432,925,741 - 32,951,551 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41433,136,046 - 33,151,142 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11433,136,045 - 33,151,142 (-)NCBI
Celera1430,181,687 - 30,196,879 (-)NCBICelera
Cytogenetic Map14p11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
auditory receptor cell stereocilium organization  (ISO,ISS)
cardiac muscle cell myoblast differentiation  (ISO,ISS)
cellular response to drug  (IEA,ISO,ISS)
cellular response to electrical stimulus  (IEA,ISO,ISS)
cellular response to glucocorticoid stimulus  (IEA,ISO,ISS)
detection of mechanical stimulus involved in sensory perception of sound  (ISO,ISS)
hematopoietic progenitor cell differentiation  (ISO)
histone H4 deacetylation  (IEA,ISO,ISS)
modification of synaptic structure  (IMP)
negative regulation by host of viral transcription  (IEA,ISO,ISS)
negative regulation of aldosterone biosynthetic process  (IEA,IMP,ISO)
negative regulation of amniotic stem cell differentiation  (IEA,ISO,ISS)
negative regulation of calcium ion-dependent exocytosis  (IMP)
negative regulation of cell population proliferation  (IEA,ISO,ISS)
negative regulation of cortisol biosynthetic process  (IEA,IMP,ISO)
negative regulation of dense core granule biogenesis  (IMP)
negative regulation of gene expression  (IEA,IMP,ISO,ISS)
negative regulation of insulin secretion  (IEA,ISO,ISS)
negative regulation of mesenchymal stem cell differentiation  (ISO)
negative regulation of neurogenesis  (IEA,ISO,ISS)
negative regulation of neuron differentiation  (IEA,IMP,ISO,ISS)
negative regulation of oxidative stress-induced neuron death  (IEA,ISO,ISS)
negative regulation of pri-miRNA transcription by RNA polymerase II  (IEA,ISO)
negative regulation of transcription by RNA polymerase II  (IMP,ISO,NAS)
negative regulation of transcription regulatory region DNA binding  (ISO,ISS)
negative regulation of transcription, DNA-templated  (IDA,IMP,ISO)
neuromuscular process controlling balance  (ISO,ISS)
neuron differentiation  (IEP)
neuronal stem cell population maintenance  (ISO,ISS)
positive regulation of apoptotic process  (IEA,ISO,ISS)
positive regulation of cysteine-type endopeptidase activity involved in apoptotic process  (IEA,ISO,ISS)
positive regulation of gene expression  (ISO,ISS)
positive regulation of neuron differentiation  (ISO,ISS)
positive regulation of oxidative stress-induced neuron death  (IMP)
positive regulation of stem cell population maintenance  (IEA,ISO,ISS)
positive regulation of transcription, DNA-templated  (IEA,ISO)
regulation of alternative mRNA splicing, via spliceosome  (ISO,ISS)
regulation of gene expression  (ISO)
regulation of osteoblast differentiation  (ISO,ISS)
regulation of oxidative stress-induced neuron death  (IMP)
regulation of transcription by RNA polymerase II  (IBA,IEA)
regulation of transcription, DNA-templated  (ISO,ISS)
response to hypoxia  (IEA,ISO,ISS)
response to ischemia  (IDA,IEP)
somatic stem cell population maintenance  (ISO,ISS)

Cellular Component
chromatin  (IDA)
cytoplasm  (ISO,ISS)
cytosol  (IEA,ISO)
nucleoplasm  (IEA,ISO)
nucleus  (IBA,IDA,IEA,ISO,ISS)
protein-containing complex  (IDA)
transcription repressor complex  (IDA,IEA,ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Ballas N, etal., Neuron. 2001 Aug 16;31(3):353-65.
2. Calderone A, etal., J Neurosci 2003 Mar 15;23(6):2112-21.
3. Chong JA, etal., Cell. 1995 Mar 24;80(6):949-57.
4. Duan P, etal., PLoS One. 2014 May 19;9(5):e97684. doi: 10.1371/journal.pone.0097684. eCollection 2014.
5. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
6. GOA data from the GO Consortium
7. Hata L, etal., J Mol Cell Cardiol. 2011 Jun;50(6):972-81. doi: 10.1016/j.yjmcc.2011.01.017. Epub 2011 Jan 31.
8. Huang Y, etal., Nat Neurosci. 1999 Oct;2(10):867-72.
9. Hwang JY, etal., J Mol Biol. 2014 Oct 9;426(20):3454-66. doi: 10.1016/j.jmb.2014.07.032. Epub 2014 Aug 6.
10. Kim CS, etal., Nucleic Acids Res. 2006;34(22):6392-403. Epub 2006 Nov 27.
11. Lunyak VV, etal., Science 2002 Nov 29;298(5599):1747-52.
12. MGD data from the GO Consortium
13. NCBI rat LocusLink and RefSeq merged data July 26, 2002
14. Noh KM, etal., Proc Natl Acad Sci U S A. 2012 Apr 17;109(16):E962-71. doi: 10.1073/pnas.1121568109. Epub 2012 Feb 27.
15. Palm K, etal., J Neurosci 1998 Feb 15;18(4):1280-96.
16. Pipeline to import KEGG annotations from KEGG into RGD
17. Prada I, etal., J Cell Biol. 2011 May 2;193(3):537-49. doi: 10.1083/jcb.201010126.
18. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
19. RGD automated import pipeline for gene-chemical interactions
20. Rodenas-Ruano A, etal., Nat Neurosci. 2012 Oct;15(10):1382-90. doi: 10.1038/nn.3214. Epub 2012 Sep 9.
21. Shimojo M, etal., Mol Cell Biol. 1999 Oct;19(10):6788-95.
22. Somekawa S, etal., Endocrinology. 2009 Jul;150(7):3110-7. Epub 2009 Apr 2.
Additional References at PubMed
PMID:8568247   PMID:9771705   PMID:10449787   PMID:10734093   PMID:11039732   PMID:11741002   PMID:11779185   PMID:14565956   PMID:14645515   PMID:15200951   PMID:15240883   PMID:15322094  
PMID:15907476   PMID:15959844   PMID:16417580   PMID:16442230   PMID:16684532   PMID:16828291   PMID:16945103   PMID:17011572   PMID:17064356   PMID:17371849   PMID:17403776   PMID:17555596  
PMID:17984088   PMID:18298477   PMID:18485095   PMID:18570921   PMID:19439607   PMID:19457133   PMID:19923298   PMID:20078938   PMID:20171735   PMID:20564196   PMID:20604903   PMID:20942606  
PMID:21046448   PMID:21068306   PMID:21139978   PMID:21179468   PMID:21199191   PMID:21252229   PMID:21258371   PMID:21368059   PMID:21884984   PMID:22431737   PMID:22780989   PMID:23069678  
PMID:24029230   PMID:24670762   PMID:25117540   PMID:25569790   PMID:25838543   PMID:26674869   PMID:26919115   PMID:26996236   PMID:27531581   PMID:27819263   PMID:29024663   PMID:29961578  
PMID:30039336   PMID:30327427   PMID:30684677   PMID:30914322   PMID:31403159  


Genomics

Comparative Map Data
Rest
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21430,859,109 - 30,879,828 (-)NCBI
Rnor_6.0 Ensembl1433,134,511 - 33,164,141 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01433,131,985 - 33,152,019 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01432,925,741 - 32,951,551 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41433,136,046 - 33,151,142 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11433,136,045 - 33,151,142 (-)NCBI
Celera1430,181,687 - 30,196,879 (-)NCBICelera
Cytogenetic Map14p11NCBI
REST
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl456,907,876 - 56,966,678 (+)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl456,907,876 - 56,966,808 (+)EnsemblGRCh38hg38GRCh38
GRCh38456,907,900 - 56,935,847 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37457,774,066 - 57,802,010 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36457,468,799 - 57,493,097 (+)NCBINCBI36hg18NCBI36
Build 34457,614,969 - 57,639,268NCBI
Celera455,279,985 - 55,307,950 (+)NCBI
Cytogenetic Map4q12NCBI
HuRef453,727,986 - 53,755,535 (+)NCBIHuRef
CHM1_1457,809,465 - 57,837,418 (+)NCBICHM1_1
Rest
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39577,413,273 - 77,434,279 (+)NCBIGRCm39mm39
GRCm39 Ensembl577,413,338 - 77,434,279 (+)Ensembl
GRCm38577,265,494 - 77,286,432 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl577,265,491 - 77,286,432 (+)EnsemblGRCm38mm10GRCm38
MGSCv37577,694,519 - 77,712,722 (+)NCBIGRCm37mm9NCBIm37
MGSCv36578,342,716 - 78,357,759 (+)NCBImm8
Celera574,535,211 - 74,550,959 (+)NCBICelera
Cytogenetic Map5C3.3NCBI
REST
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1473,556,780 - 73,582,419 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl473,526,085 - 73,582,242 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0466,984,466 - 67,012,301 (-)NCBIMhudiblu_PPA_v0panPan3
REST
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11349,041,082 - 49,062,596 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1349,041,047 - 49,059,388 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1348,930,954 - 48,953,349 (+)NCBI
ROS_Cfam_1.01349,654,746 - 49,677,219 (+)NCBI
UMICH_Zoey_3.11349,327,159 - 49,349,567 (+)NCBI
UNSW_CanFamBas_1.01348,856,606 - 48,878,993 (+)NCBI
UU_Cfam_GSD_1.01349,801,275 - 49,823,781 (+)NCBI
Rest
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440528527,258,819 - 27,303,941 (-)NCBI
SpeTri2.0NW_00493648219,018,454 - 19,040,438 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
REST
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl856,035,150 - 56,215,013 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1856,035,182 - 56,061,140 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2857,440,573 - 57,466,453 (-)NCBISscrofa10.2Sscrofa10.2susScr3
REST
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1711,749,312 - 11,776,103 (-)NCBI
ChlSab1.1 Ensembl711,749,168 - 11,773,340 (-)Ensembl
Rest
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462476112,464,243 - 12,495,294 (-)NCBI

Position Markers
PMC84675P1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01433,136,967 - 33,137,612NCBIRnor6.0
Rnor_5.01432,930,723 - 32,931,368UniSTSRnor5.0
RGSC_v3.41433,137,600 - 33,138,245UniSTSRGSC3.4
Celera1430,183,241 - 30,183,886UniSTS
Cytogenetic Map14p11UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
619619Rf4Renal disease susceptibility QTL 44.10.002total urine protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)14134403399Rat
9589814Gluco67Glucose level QTL 674.540.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)14141333960Rat
7411573Bw139Body weight QTL 1394.70.001body mass (VT:0001259)body weight gain (CMO:0000420)14141333960Rat
634352Apr6Acute phase response QTL 63.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)14142766285Rat
1581500Renag1Renal agenesis QTL 1kidney development trait (VT:0000527)percentage of study population developing unilateral renal agenesis during a period of time (CMO:0000940)14975643572854397Rat
1358296Ael3Aortic elastin QTL 33.70.00051aorta elastin amount (VT:0003905)aortic elastin141053997755539977Rat
2302045Pia39Pristane induced arthritis QTL 394.90.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G2a level (CMO:0002116)141053997755539977Rat
731183Pia20Pristane induced arthritis QTL 203.55joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)141072926861873323Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1412680424106641756Rat
1300140Srn3Serum renin concentration QTL 33.19blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)141633698833163485Rat
631528Scl11Serum cholesterol level QTL 114.9blood cholesterol amount (VT:0000180)blood total cholesterol level (CMO:0000051)141915991938289187Rat
71117Niddm17Non-insulin dependent diabetes mellitus QTL 172.35blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)141916189343957503Rat
631262Tcas4Tongue tumor susceptibility QTL 47.29tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)141919154143957628Rat
2313397Coatc1Coat color QTL1coat/hair pigmentation trait (VT:0010463)coat/hair color measurement (CMO:0001808)142018938665189386Rat
61420Pia6Pristane induced arthritis QTL 64.9joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)142026622343957628Rat
10755459Coatc15Coat color QTL 150.01681coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)142145756566457565Rat
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143259392686191589Rat
2324617Coatc2Coat color QTL 20.001coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)143303991261783215Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:291
Count of miRNA genes:194
Interacting mature miRNAs:218
Transcripts:ENSRNOT00000002837, ENSRNOT00000002844, ENSRNOT00000064627
Prediction methods:Microtar, Miranda, Rnahybrid
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 1 28 33 17 19 17 2 2 29 28 35 11 2
Low 2 14 24 24 24 6 9 45 7 6 6
Below cutoff 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000002837   ⟹   ENSRNOP00000002837
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1433,135,413 - 33,150,509 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000002844   ⟹   ENSRNOP00000002844
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1433,134,511 - 33,164,141 (-)Ensembl
RefSeq Acc Id: NM_031788   ⟹   NP_113976
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21430,859,109 - 30,879,148 (-)NCBI
Rnor_6.01433,135,413 - 33,150,509 (-)NCBI
Rnor_5.01432,925,741 - 32,951,551 (-)NCBI
RGSC_v3.41433,136,046 - 33,151,142 (-)RGD
Celera1430,181,687 - 30,196,879 (-)RGD
Sequence:
RefSeq Acc Id: XM_006250848   ⟹   XP_006250910
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01433,131,985 - 33,152,019 (-)NCBI
Rnor_5.01432,925,741 - 32,951,551 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006250849   ⟹   XP_006250911
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21430,859,109 - 30,878,983 (-)NCBI
Rnor_6.01433,131,985 - 33,151,920 (-)NCBI
Rnor_5.01432,925,741 - 32,951,551 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039092503   ⟹   XP_038948431
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21430,859,109 - 30,879,828 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_113976   ⟸   NM_031788
- Sequence:
RefSeq Acc Id: XP_006250910   ⟸   XM_006250848
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006250911   ⟸   XM_006250849
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000002844   ⟸   ENSRNOT00000002844
RefSeq Acc Id: ENSRNOP00000002837   ⟸   ENSRNOT00000002837
RefSeq Acc Id: XP_038948431   ⟸   XM_039092503
- Peptide Label: isoform X1
Protein Domains
C2H2-type

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)
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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
F344/NRrrc (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
FHH/EurMcwi (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)
FHH/EurMcwi (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
FHL/EurMcwi (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)
FHL/EurMcwi (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
GH/OmrMcwi (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)
GK/Ox (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
LE/Stm (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
LEW/Crl (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
LEW/NCrlBR (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
LH/MavRrrc (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
LL/MavRrrc (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
LN/MavRrrc (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
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
14 32930604 32930605 C 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), LH/MavRrrc (KNAW), LL/MavRrrc (KNAW), LN/MavRrrc (KNAW), MHS/Gib (KNAW), MR/N (KNAW), SR/JrHsd (KNAW), SS/Jr (KNAW), SS/JrHsdMcwi (KNAW), WAG/Rij (KNAW), ACI/N (KNAW), ACI/EurMcwi (KNAW), BBDP/WorN (KNAW), SBH/Ygl (KNAW), SBN/Ygl (KNAW), SHR/NCrlPrin (KNAW), SHR/NHsd (KNAW), SHR/OlaIpcv (KNAW), SHR/OlaIpcvPrin (KNAW), SHRSP/Gcrc (KNAW), F344/NRrrc (Illumina) (KNAW), WKY/Gcrc (KNAW), WKY/N (KNAW), WKY/NCrl (KNAW), WKY/NHsd (KNAW), BUF/N (KNAW), DA/BklArbNsi (KNAW), F344/NRrrc (SOLiD) (KNAW), F344/NCrl (KNAW), F344/NHsd (KNAW), FHH/EurMcwi (KNAW), FHL/EurMcwi (KNAW), GK/Ox (KNAW), LEW/Crl (KNAW), LEW/NCrl (KNAW), M520/N (KNAW), MNS/Gib (KNAW), WN/N (KNAW), SDLEF7/Barth (UDEL), LE/OrlBarth (UDEL), Crl:SD (UDEL), IS/Kyo (KyushuU), BUF/MNa (KyushuU), F344/DuCrlCrlj (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)
14 32931315 32931316 T G snv FHH/EurMcwi (MCW), ACI/EurMcwi (MCW)


Assembly: Rnor_6.0
Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
14 33136848 33136849 C A snv ACI/EurMcwi (MCW), WKY/NHsd (RGD), 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), F344/NRrrc (MCW), WKY/N (MCW), WN/N (MCW), FHL/EurMcwi (RGD), ACI/EurMcwi (RGD), BBDP/Wor (RGD), F344/NCrl (RGD), FHH/EurMcwi (RGD), GK/Ox (RGD), LEW/Crl (RGD), LH/MavRrrc (RGD), LN/MavRrrc (RGD), LL/MavRrrc (RGD), MHS/Gib (RGD), MNS/Gib (RGD), SBH/Ygl (RGD), SBN/Ygl (RGD), SHR/NHsd (RGD), SHRSP/Gcrc (RGD), SR/JrHsd (RGD), SS/Jr (RGD), SS/JrHsdMcwi (RGD), WAG/Rij (RGD), WKY/NCrl (RGD), WKY/Gcrc (RGD)
14 33137559 33137560 T G snv ACI/EurMcwi (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621069 AgrOrtholog
Ensembl Genes ENSRNOG00000002074 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000002837 UniProtKB/TrEMBL
  ENSRNOP00000002844 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000002837 UniProtKB/TrEMBL
  ENSRNOT00000002844 ENTREZGENE, UniProtKB/TrEMBL
InterPro REST UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_C2H2_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_C2H2_type UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:83618 UniProtKB/Swiss-Prot
NCBI Gene 83618 ENTREZGENE
PANTHER PTHR24403:SF64 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Rest PhenoGen
PROSITE ZINC_FINGER_C2H2_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART ZnF_C2H2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF57667 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt D4A7T2_RAT UniProtKB/TrEMBL
  F1M9A3_RAT UniProtKB/TrEMBL
  O54963 ENTREZGENE
  Q2V6Q4_RAT UniProtKB/TrEMBL
  REST_RAT UniProtKB/Swiss-Prot
UniProt Secondary O54964 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-09-10 Rest  RE1-silencing transcription factor    zinc finger transcription factor REST protein  Name updated 1299863 APPROVED
2002-08-07 Rest  zinc finger transcription factor REST protein      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_disease mRNA and protein expression are induced by global ischemia 1299303
gene_expression expression decreases during neuronal development 633753
gene_transcript has several splicing forms with mRNAs encoding proteins with nine, five, or four zinc finger motifs 633753