Per3 (period circadian regulator 3) - Rat Genome Database
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Gene: Per3 (period circadian regulator 3) Rattus norvegicus
Analyze
Symbol: Per3
Name: period circadian regulator 3
RGD ID: 621581
Description: Predicted to have enzyme binding activity; transcription corepressor binding activity; and transcription regulatory region sequence-specific DNA binding activity. Predicted to be involved in several processes, including entrainment of circadian clock by photoperiod; protein stabilization; and regulation of gene expression. Predicted to localize to cytoplasm and nucleus. Human ortholog(s) of this gene implicated in advanced sleep phase syndrome and advanced sleep phase syndrome 3. Orthologous to human PER3 (period circadian regulator 3); INTERACTS WITH (+)-schisandrin B; 1-naphthyl isothiocyanate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: circadian clock protein PERIOD 3; period circadian clock 3; period circadian protein homolog 3; period homolog 3; period homolog 3 (Drosophila); period3; rper3
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
Rnor_6.05168,088,126 - 168,123,482 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5168,086,998 - 168,123,395 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05171,665,221 - 171,700,529 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45168,152,693 - 168,187,442 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.15168,163,026 - 168,197,630 (-)NCBI
Celera5159,712,426 - 159,747,156 (-)NCBICelera
Cytogenetic Map5q36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
1,2-dimethylhydrazine  (ISO)
1-naphthyl isothiocyanate  (EXP)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3,3',4,4'-tetrachlorobiphenyl  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
4-hydroxyphenyl retinamide  (ISO)
6-propyl-2-thiouracil  (EXP)
acrylamide  (EXP,ISO)
aflatoxin B1  (EXP,ISO)
ammonium chloride  (EXP)
amphetamine  (EXP)
antirheumatic drug  (ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
butanal  (ISO)
C60 fullerene  (EXP)
carbon nanotube  (ISO)
cerium trichloride  (ISO)
chloroprene  (EXP)
choline  (ISO)
chrysene  (ISO)
cisplatin  (ISO)
cocaine  (ISO)
copper atom  (EXP)
copper(0)  (EXP)
crocidolite asbestos  (ISO)
cyclosporin A  (ISO)
dibenz[a,h]anthracene  (ISO)
dibutyl phthalate  (ISO)
dichloroacetic acid  (ISO)
dichloromethane  (ISO)
dicrotophos  (ISO)
diethyl maleate  (EXP)
dioxygen  (ISO)
disodium selenite  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
endosulfan  (EXP)
Erionite  (ISO)
ethanol  (ISO)
folic acid  (ISO)
furan  (EXP)
gold atom  (ISO)
gold(0)  (ISO)
isoprenaline  (ISO)
L-methionine  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
metacetamol  (ISO)
methotrexate  (ISO)
methylmercury chloride  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
N-nitrosodiethylamine  (EXP)
nickel atom  (ISO)
ochratoxin A  (ISO)
paracetamol  (ISO)
pentanal  (ISO)
phenethyl caffeate  (EXP)
phenethyl isothiocyanate  (ISO)
phenobarbital  (ISO)
phenylmercury acetate  (ISO)
pirinixic acid  (ISO)
potassium chromate  (ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
progesterone  (ISO)
propanal  (ISO)
ritodrine  (ISO)
rotenone  (EXP)
SB 431542  (ISO)
Se-methyl-L-selenocysteine  (EXP)
Se-methylselenocysteine  (EXP)
selenium atom  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenate  (ISO)
styrene  (ISO)
testosterone  (ISO)
tetrachloromethane  (EXP,ISO)
tetraphene  (ISO)
thioacetamide  (EXP)
titanium dioxide  (EXP)
tremolite asbestos  (ISO)
tributylstannane  (ISO)
trichloroethene  (EXP)
triphenyl phosphate  (EXP)
troglitazone  (ISO)
tunicamycin  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vitamin E  (ISO)
vorinostat  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytoplasm  (IBA,IEA,ISO,ISS)
nucleus  (IBA,IEA,ISO,ISS)

Molecular Function

References

Additional References at PubMed
PMID:9989497   PMID:12843397   PMID:14564007   PMID:15917222   PMID:16267386   PMID:17346965   PMID:19716732   PMID:20738730   PMID:21957163   PMID:24439663   PMID:24577121   PMID:26903630  


Genomics

Comparative Map Data
Per3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.05168,088,126 - 168,123,482 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5168,086,998 - 168,123,395 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05171,665,221 - 171,700,529 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45168,152,693 - 168,187,442 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.15168,163,026 - 168,197,630 (-)NCBI
Celera5159,712,426 - 159,747,156 (-)NCBICelera
Cytogenetic Map5q36NCBI
PER3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl17,784,320 - 7,845,177 (+)EnsemblGRCh38hg38GRCh38
GRCh3817,784,285 - 7,845,181 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh3717,844,413 - 7,905,241 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3617,767,350 - 7,827,824 (+)NCBINCBI36hg18NCBI36
Build 3417,779,028 - 7,839,503NCBI
Celera16,952,489 - 7,012,918 (+)NCBI
Cytogenetic Map1p36.23NCBI
HuRef16,993,003 - 7,053,532 (+)NCBIHuRef
CHM1_117,832,226 - 7,892,978 (+)NCBICHM1_1
Per3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394151,081,475 - 151,129,167 (-)NCBIGRCm39mm39
GRCm384150,997,018 - 151,044,707 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4151,003,652 - 151,044,665 (-)EnsemblGRCm38mm10GRCm38
MGSCv374150,377,764 - 150,418,731 (-)NCBIGRCm37mm9NCBIm37
MGSCv364149,848,512 - 149,888,389 (-)NCBImm8
Celera4153,279,480 - 153,320,397 (-)NCBICelera
Cytogenetic Map4E2NCBI
Per3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554865,059,773 - 5,101,637 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554865,058,602 - 5,101,480 (-)NCBIChiLan1.0ChiLan1.0
PER3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.117,795,549 - 7,855,922 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl17,795,552 - 7,855,922 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v016,547,667 - 6,607,905 (+)NCBIMhudiblu_PPA_v0panPan3
PER3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl561,445,461 - 61,498,499 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1561,445,580 - 61,499,393 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Per3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049366232,291,211 - 2,362,693 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PER3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1668,487,634 - 68,548,718 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
PER3
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.120123,912,773 - 123,970,440 (-)NCBI
ChlSab1.1 Ensembl20123,912,208 - 123,970,549 (-)Ensembl
Per3
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248183,959,639 - 4,007,739 (-)NCBI

Position Markers
D5Mco10  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.05168,109,415 - 168,109,659NCBIRnor6.0
Rnor_5.05171,686,510 - 171,686,754UniSTSRnor5.0
RGSC_v3.45168,173,895 - 168,174,140RGDRGSC3.4
RGSC_v3.45168,173,896 - 168,174,140UniSTSRGSC3.4
RGSC_v3.15168,184,083 - 168,184,328RGD
Celera5159,733,610 - 159,733,854UniSTS
Cytogenetic Map5q36UniSTS
BF419445  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.05168,104,117 - 168,104,242NCBIRnor6.0
Rnor_5.05171,681,212 - 171,681,337UniSTSRnor5.0
RGSC_v3.45168,168,684 - 168,168,809UniSTSRGSC3.4
Celera5159,728,417 - 159,728,542UniSTS
Cytogenetic Map5q36UniSTS
RH 3.4 Map51128.4UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61444Strs2Sensitivity to stroke QTL 24.7cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)5142309061173707219Rat
724525Bp147Blood pressure QTL 1474.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5132551937173707219Rat
1331721Bp210Blood pressure QTL 2103.413arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)5149029982173687766Rat
631562Apr2Acute phase response QTL 23.7blood murinoglobulin 1 amount (VT:0010597)plasma murinoglobulin 1 level (CMO:0001931)5142307322173707219Rat
738018Anxrr4Anxiety related response QTL 45.1exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)5136354114173707219Rat
631272Lanf1Left ventricular atrial natriuretic factor QTL 112heart left ventricle natriuretic peptide A amount (VT:0010596)heart left ventricle natriuretic peptide A level (CMO:0002165)5157319671173707219Rat
631505Bp103Blood pressure QTL 1033.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5138154677172402610Rat
1302790Scl20Serum cholesterol level QTL 206.40.0001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)584963058173504662Rat
1641920Colcs1Colorectal carcinoma susceptibility QTL 12.990.0055intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)5128687766173687766Rat
1598819Bp292Blood pressure QTL 2924.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5133943857173707219Rat
1598861Cm64Cardiac mass QTL 642.9heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5133943857173707219Rat
634349Bp139Blood pressure QTL 1390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5134197905173707219Rat
1354631Swd2Spike wave discharge measurement QTL 23.640.0002brain electrophysiology trait (VT:0010557)brain total spike-and-wave discharge duration (CMO:0001740)5157319671171194163Rat
1549904Neuinf1Neuroinflammation QTL 130nervous system integrity trait (VT:0010566)blood T lymphocyte count (CMO:0000110)5161084664173707219Rat
61393Bp7Blood pressure QTL 74.50.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)561612600168109659Rat
7794791Mcs33Mammary carcinoma susceptibility QTL 331.93mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)5136640731173707219Rat
8552908Pigfal4Plasma insulin-like growth factor 1 level QTL 46.6blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5134712342173707219Rat
8694169Bw148Body weight QTL 14850.001body mass (VT:0001259)body weight gain (CMO:0000420)5134712342173707219Rat
10053720Scort26Serum corticosterone level QTL 262.060.0147blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)5131077716173707219Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:157
Count of miRNA genes:128
Interacting mature miRNAs:139
Transcripts:ENSRNOT00000024932
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 12 13 4 12 4 4 7 27 21 32 11 4
Low 31 44 37 7 37 4 4 47 14 9 4
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_023978 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006239500 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006239501 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006239502 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006239504 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006239505 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593650 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593651 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593652 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593653 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AABR07073194 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01040931 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AB092512 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AB092513 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AB092977 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC115172 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF311875 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473968 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000024932   ⟹   ENSRNOP00000024932
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl5168,086,998 - 168,123,395 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000092747   ⟹   ENSRNOP00000076026
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl5168,088,272 - 168,123,030 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000092840
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl5168,119,561 - 168,123,030 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000092912
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl5168,109,659 - 168,110,285 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000092923
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl5168,121,316 - 168,123,021 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000093063   ⟹   ENSRNOP00000075932
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl5168,112,376 - 168,120,179 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000093100
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl5168,121,998 - 168,122,977 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000093114
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl5168,121,329 - 168,121,640 (-)Ensembl
RefSeq Acc Id: NM_023978   ⟹   NP_076468
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05168,088,126 - 168,123,030 (-)NCBI
Rnor_5.05171,665,221 - 171,700,529 (-)NCBI
RGSC_v3.45168,152,693 - 168,187,442 (-)RGD
Celera5159,712,426 - 159,747,156 (-)RGD
Sequence:
RefSeq Acc Id: XM_006239500   ⟹   XP_006239562
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05168,089,355 - 168,123,482 (-)NCBI
Rnor_5.05171,665,221 - 171,700,529 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006239501   ⟹   XP_006239563
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05168,089,355 - 168,123,482 (-)NCBI
Rnor_5.05171,665,221 - 171,700,529 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006239502   ⟹   XP_006239564
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05168,089,355 - 168,123,482 (-)NCBI
Rnor_5.05171,665,221 - 171,700,529 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006239504   ⟹   XP_006239566
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05168,088,190 - 168,123,482 (-)NCBI
Rnor_5.05171,665,221 - 171,700,529 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006239505   ⟹   XP_006239567
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05168,088,190 - 168,123,482 (-)NCBI
Rnor_5.05171,665,221 - 171,700,529 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017593650   ⟹   XP_017449139
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05168,089,355 - 168,123,482 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017593651   ⟹   XP_017449140
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05168,089,355 - 168,123,482 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017593652   ⟹   XP_017449141
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05168,089,355 - 168,123,482 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017593653   ⟹   XP_017449142
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05168,089,355 - 168,123,482 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_076468   ⟸   NM_023978
- UniProtKB: Q8CJE2 (UniProtKB/Swiss-Prot),   G3V8D9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006239567   ⟸   XM_006239505
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: XP_006239566   ⟸   XM_006239504
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: XP_006239563   ⟸   XM_006239501
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_006239564   ⟸   XM_006239502
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_006239562   ⟸   XM_006239500
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_017449140   ⟸   XM_017593651
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017449141   ⟸   XM_017593652
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017449142   ⟸   XM_017593653
- Peptide Label: isoform X9
- Sequence:
RefSeq Acc Id: XP_017449139   ⟸   XM_017593650
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000076026   ⟸   ENSRNOT00000092747
RefSeq Acc Id: ENSRNOP00000024932   ⟸   ENSRNOT00000024932
RefSeq Acc Id: ENSRNOP00000075932   ⟸   ENSRNOT00000093063
Protein Domains
PAC   PAS

Transcriptome

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

Promoters
RGD ID:13694287
Promoter ID:EPDNEW_R4812
Type:initiation region
Name:Per3_1
Description:period circadian regulator 3
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_6.05168,123,419 - 168,123,479EPDNEW

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)
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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
ACI/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
BBDP/Wor (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
BN/SsN (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
Buf/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
COP/CrCrl (MCW & UW)
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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
5 171671473 171671474 G A snv ACI/EurMcwi (MCW), BDIX.Cg-Tal/NemOda (KyushuU), COP/CrCrl (MCW & UW), DOB/Oda (KyushuU), ACI/N (KNAW), ACI/EurMcwi (KNAW), SHR/NCrlPrin (KNAW), SHR/NHsd (KNAW), SHR/OlaIpcv (KNAW), SHR/OlaIpcvPrin (KNAW), SHRSP/Gcrc (KNAW), WKY/Gcrc (KNAW), WKY/N (KNAW), WKY/NCrl (KNAW), WKY/NHsd (KNAW), GK/Ox (KNAW), LE/Stm (Illumina) (KNAW), LE/Stm (SOLiD) (KNAW), LE/Stm (KyushuU), LEC/Tj (KyushuU), BDIX/NemOda (KyushuU)
5 171672627 171672628 C T snv WN/N (KNAW)
5 171699538 171699539 A G snv SR/JrHsd (MCW)


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
5 168094378 168094379 G A snv ACI/EurMcwi (MCW), WKY/NHsd (RGD), CDR, ACI/N (MCW), COP/CrCrl (MCW & UW), WKY/Gcrc (RGD), WKY/NCrl (RGD), SHRSP/Gcrc (RGD), SHR/NHsd (RGD), LE/Stm (RGD), GK/Ox (RGD), ACI/EurMcwi (RGD), WKY/N (MCW)
5 168095532 168095533 C T snv WN/N (MCW)
5 168099268 168099269 C T snv Buf/N (MCW), LH/MavRrrc (RGD), LN/MavRrrc (RGD), MNS/Gib (RGD), SBH/Ygl (RGD), F344/NCrl (RGD), BBDP/Wor (RGD), SS/JrHsdMcwi (RGD), SBN/Ygl (RGD), MR/N (MCW), M520/N (MCW), F344/NRrrc (MCW), WAG/Rij (RGD), SS/Jr (RGD)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
5 168158945 168158946 G A snv SHR/OlaIpcv (ICL), LCR/2Mco (UMich), ACI/N (KNAW), LE/Stm (KNAW), WKY/N (KNAW), SHR/OlaIpcv (KNAW), ACI/EurMcwi (MCW), SHRSP/Gcrc (MDC), COP/CrCrl (MCW & UW), ACI/EurMcwi (ICL), LE/Stm (ICL), GK/Ox (ICL), SHR/OlaIpcv (ICL), SHR/NHsd (ICL), SHRSP/Gcrc (ICL), WKY/Gcrc (ICL), WKY/NHsd (ICL), WKY/NCrl (ICL), LCR/1Mco (UMich)
5 168186855 168186856 A G snv SR/JrHsd (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621581 AgrOrtholog
Ensembl Genes ENSRNOG00000018413 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000024932 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000075932 UniProtKB/TrEMBL
  ENSRNOP00000076026 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000024932 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000092747 UniProtKB/TrEMBL
  ENSRNOT00000093063 UniProtKB/TrEMBL
InterPro PAS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PAS-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PAS_fold_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Per_circ_prot_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Period_circadian-like_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:78962 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 78962 ENTREZGENE
PANTHER PTHR11269:SF13 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam PAS_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Period_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Per3 PhenoGen
PROSITE PAS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART PAS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF55785 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniGene Rn.230006 ENTREZGENE
UniProt A0A1B0GWK7_RAT UniProtKB/TrEMBL
  A0A1B0GWU7_RAT UniProtKB/TrEMBL
  G3V8D9 ENTREZGENE, UniProtKB/TrEMBL
  PER3_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-10-09 Per3  period circadian regulator 3  Per3  period circadian clock 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-01-02 Per3  period circadian clock 3  Per3  period homolog 3 (Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Per3  period homolog 3 (Drosophila)      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Per3  period homolog 3 (Drosophila)      Symbol and Name status set to provisional 70820 PROVISIONAL