Pphln1 (periphilin 1) - Rat Genome Database

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Gene: Pphln1 (periphilin 1) Rattus norvegicus
Analyze
Symbol: Pphln1
Name: periphilin 1
RGD ID: 1306207
Description: Predicted to be involved in negative regulation of gene expression, epigenetic; positive regulation of DNA methylation-dependent heterochromatin assembly; and protein localization to heterochromatin. Predicted to localize to Golgi apparatus; cytosol; and nucleoplasm. Orthologous to human PPHLN1 (periphilin 1); INTERACTS WITH 2,6-dinitrotoluene; bisphenol A; flutamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: LOC366975; periphilin-1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.27124,538,594 - 124,629,985 (+)NCBI
Rnor_6.0 Ensembl7134,603,121 - 134,695,864 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.07134,602,109 - 134,693,807 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.07134,269,149 - 134,361,038 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47131,866,854 - 131,958,060 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.17131,951,572 - 132,034,500 (+)NCBI
Celera7120,936,842 - 121,027,416 (+)NCBICelera
Cytogenetic Map7q35NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytosol  (IEA,ISO)
Golgi apparatus  (IEA,ISO)
nucleoplasm  (IBA,ISO)

Molecular Function

References

Additional References at PubMed
PMID:12477932   PMID:19730898   PMID:22658674   PMID:22681889   PMID:26022416   PMID:28581500  


Genomics

Comparative Map Data
Pphln1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.27124,538,594 - 124,629,985 (+)NCBI
Rnor_6.0 Ensembl7134,603,121 - 134,695,864 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.07134,602,109 - 134,693,807 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.07134,269,149 - 134,361,038 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47131,866,854 - 131,958,060 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.17131,951,572 - 132,034,500 (+)NCBI
Celera7120,936,842 - 121,027,416 (+)NCBICelera
Cytogenetic Map7q35NCBI
PPHLN1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1242,238,447 - 42,459,715 (+)EnsemblGRCh38hg38GRCh38
GRCh381242,326,126 - 42,448,621 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371242,719,969 - 42,842,423 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361241,006,214 - 41,128,689 (+)NCBINCBI36hg18NCBI36
Build 341241,006,213 - 41,122,031NCBI
Celera1241,521,768 - 41,644,263 (+)NCBI
Cytogenetic Map12q12NCBI
HuRef1239,746,824 - 39,869,220 (+)NCBIHuRef
CHM1_11242,686,556 - 42,809,069 (+)NCBICHM1_1
Pphln1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391593,296,224 - 93,389,794 (+)NCBIGRCm39mm39
GRCm39 Ensembl1593,296,231 - 93,389,391 (+)Ensembl
GRCm381593,398,345 - 93,491,913 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1593,398,350 - 93,491,510 (+)EnsemblGRCm38mm10GRCm38
MGSCv371593,228,781 - 93,322,344 (+)NCBIGRCm37mm9NCBIm37
MGSCv361593,226,538 - 93,319,690 (+)NCBImm8
Celera1595,543,086 - 95,639,831 (+)NCBICelera
Cytogenetic Map15E3NCBI
Pphln1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555001,806,658 - 1,892,056 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555001,744,968 - 1,892,056 (+)NCBIChiLan1.0ChiLan1.0
PPHLN1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11247,136,806 - 47,256,615 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1247,125,110 - 47,256,615 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01246,271,425 - 46,392,128 (-)NCBIMhudiblu_PPA_v0panPan3
PPHLN1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12711,445,893 - 11,590,168 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2711,443,394 - 11,590,107 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2734,713,227 - 34,859,870 (+)NCBI
ROS_Cfam_1.02711,639,299 - 11,786,475 (-)NCBI
UMICH_Zoey_3.12711,452,912 - 11,604,788 (-)NCBI
UNSW_CanFamBas_1.02711,481,989 - 11,628,875 (-)NCBI
UU_Cfam_GSD_1.02734,959,063 - 35,106,374 (+)NCBI
Pphln1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494572,006,180 - 72,162,973 (-)NCBI
SpeTri2.0NW_0049365121,001,733 - 1,158,647 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PPHLN1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl573,496,820 - 73,709,342 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1573,556,205 - 73,696,403 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2576,314,125 - 76,434,664 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PPHLN1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11138,563,818 - 38,684,210 (+)NCBI
ChlSab1.1 Ensembl1138,563,866 - 38,684,030 (+)Ensembl
Vero_WHO_p1.0NW_023666037207,876,143 - 207,999,250 (-)NCBI
Pphln1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462481610,190,505 - 10,229,846 (-)NCBI

Position Markers
RH131400  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27124,629,718 - 124,629,924 (+)MAPPER
Rnor_6.07134,693,541 - 134,693,746NCBIRnor6.0
Rnor_5.07134,360,772 - 134,360,977UniSTSRnor5.0
RGSC_v3.47131,957,797 - 131,958,002UniSTSRGSC3.4
Celera7121,027,153 - 121,027,358UniSTS
RH 3.4 Map71021.1UniSTS
Cytogenetic Map7q35UniSTS
BF396377  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27124,581,871 - 124,582,049 (+)MAPPER
Rnor_6.07134,645,544 - 134,645,721NCBIRnor6.0
Rnor_5.07134,312,584 - 134,312,761UniSTSRnor5.0
RGSC_v3.47131,909,276 - 131,909,453UniSTSRGSC3.4
Celera7120,979,284 - 120,979,461UniSTS
RH 3.4 Map71021.1UniSTS
Cytogenetic Map7q35UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300179Kidm5Kidney mass QTL 53.51kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)751251919145729302Rat
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)771448715145729302Rat
634331Pia17Pristane induced arthritis QTL 174.7joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)781645773140745067Rat
1331728Bp214Blood pressure QTL 2142.825arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)788365265134673427Rat
2317052Aia17Adjuvant induced arthritis QTL 172.13joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)791018361136018361Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)791832949145158140Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)791832949145158140Rat
71114Niddm14Non-insulin dependent diabetes mellitus QTL 144.5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)793726906138726906Rat
2298475Eau6Experimental allergic uveoretinitis QTL 60.0029uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)793726906138726906Rat
1558655Swd4Spike wave discharge measurement QTL 43.680.0002brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge severity grade (CMO:0001988)796630946141630946Rat
2299163Iddm34Insulin dependent diabetes mellitus QTL 342.71blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)7100028953145729302Rat
631687Hcas1Hepatocarcinoma susceptibility QTL 13.90.001liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)7100160423140335001Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)7100192194145192194Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)7106564316145729302Rat
1331731Bp216Blood pressure QTL 2162.851arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7111519266143965591Rat
731174Uae23Urinary albumin excretion QTL 232.40.0042urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)7114825174145729302Rat
2306821Bp335Blood pressure QTL 3350.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7115922628145729302Rat
631663Bw6Body weight QTL 63.4body mass (VT:0001259)body weight (CMO:0000012)7120746024145692398Rat
1300112Bp183Blood pressure QTL 1833.51arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)7121654760145729302Rat
1331748Bp215Blood pressure QTL 2154.043arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7121986439143965591Rat
1357339Stl14Serum triglyceride level QTL 143.450.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7122421276143965415Rat
631201Panci1Pancreas inflammation QTL 100.001pancreas integrity trait (VT:0010560)percentage of study population displaying chronic pancreatitis at a point in time (CMO:0001214)7126463827137325116Rat
1354582Stl11Serum triglyceride level QTL 113.42blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7129412003145729302Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:284
Count of miRNA genes:173
Interacting mature miRNAs:221
Transcripts:ENSRNOT00000055688
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 2 26 30 16 18 16 66 21 41 11
Low 1 17 27 25 1 25 8 11 8 14 8
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001108992 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242230 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242231 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242233 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242234 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242235 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242236 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017595022 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079694 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079695 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079696 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079697 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079698 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079699 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079700 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079701 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079702 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079703 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079704 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079705 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005486692 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AY724510 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC166484 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474027 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ211850 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000187 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000055688   ⟹   ENSRNOP00000052548
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl7134,603,122 - 134,693,804 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000090908   ⟹   ENSRNOP00000072231
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl7134,603,121 - 134,695,864 (+)Ensembl
RefSeq Acc Id: NM_001108992   ⟹   NP_001102462
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27124,539,447 - 124,629,982 (+)NCBI
Rnor_6.07134,603,122 - 134,693,804 (+)NCBI
Rnor_5.07134,269,149 - 134,361,038 (+)NCBI
RGSC_v3.47131,866,854 - 131,958,060 (+)RGD
Celera7120,936,842 - 121,027,416 (+)RGD
Sequence:
RefSeq Acc Id: XM_006242230   ⟹   XP_006242292
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27124,538,663 - 124,629,985 (+)NCBI
Rnor_6.07134,602,109 - 134,693,807 (+)NCBI
Rnor_5.07134,269,149 - 134,361,038 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006242231   ⟹   XP_006242293
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.07134,602,109 - 134,693,807 (+)NCBI
Rnor_5.07134,269,149 - 134,361,038 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006242233   ⟹   XP_006242295
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27124,538,661 - 124,629,985 (+)NCBI
Rnor_6.07134,602,109 - 134,693,807 (+)NCBI
Rnor_5.07134,269,149 - 134,361,038 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006242234   ⟹   XP_006242296
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.07134,602,109 - 134,693,807 (+)NCBI
Rnor_5.07134,269,149 - 134,361,038 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006242235   ⟹   XP_006242297
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27124,538,605 - 124,629,985 (+)NCBI
Rnor_6.07134,602,298 - 134,693,807 (+)NCBI
Rnor_5.07134,269,149 - 134,361,038 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006242236   ⟹   XP_006242298
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27124,538,605 - 124,629,985 (+)NCBI
Rnor_6.07134,602,252 - 134,693,807 (+)NCBI
Rnor_5.07134,269,149 - 134,361,038 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017595022   ⟹   XP_017450511
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27124,538,594 - 124,629,985 (+)NCBI
Rnor_6.07134,602,363 - 134,693,807 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039079694   ⟹   XP_038935622
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27124,538,594 - 124,629,985 (+)NCBI
RefSeq Acc Id: XM_039079695   ⟹   XP_038935623
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27124,538,605 - 124,629,985 (+)NCBI
RefSeq Acc Id: XM_039079696   ⟹   XP_038935624
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27124,538,594 - 124,629,985 (+)NCBI
RefSeq Acc Id: XM_039079697   ⟹   XP_038935625
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27124,538,594 - 124,629,985 (+)NCBI
RefSeq Acc Id: XM_039079698   ⟹   XP_038935626
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27124,538,605 - 124,629,985 (+)NCBI
RefSeq Acc Id: XM_039079699   ⟹   XP_038935627
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27124,571,319 - 124,629,985 (+)NCBI
RefSeq Acc Id: XM_039079700   ⟹   XP_038935628
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27124,538,637 - 124,629,985 (+)NCBI
RefSeq Acc Id: XM_039079701   ⟹   XP_038935629
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27124,574,368 - 124,629,985 (+)NCBI
RefSeq Acc Id: XM_039079702   ⟹   XP_038935630
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27124,572,769 - 124,629,985 (+)NCBI
RefSeq Acc Id: XM_039079703   ⟹   XP_038935631
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27124,571,082 - 124,629,985 (+)NCBI
RefSeq Acc Id: XM_039079704   ⟹   XP_038935632
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27124,538,594 - 124,586,204 (+)NCBI
RefSeq Acc Id: XM_039079705   ⟹   XP_038935633
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27124,538,605 - 124,586,204 (+)NCBI
RefSeq Acc Id: XR_005486692
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27124,538,594 - 124,629,985 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001102462   ⟸   NM_001108992
- UniProtKB: D4A9M4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006242292   ⟸   XM_006242230
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_006242293   ⟸   XM_006242231
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006242295   ⟸   XM_006242233
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: XP_006242296   ⟸   XM_006242234
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_006242297   ⟸   XM_006242235
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: XP_006242298   ⟸   XM_006242236
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017450511   ⟸   XM_017595022
- Peptide Label: isoform X1
- UniProtKB: D4A9M4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000052548   ⟸   ENSRNOT00000055688
RefSeq Acc Id: ENSRNOP00000072231   ⟸   ENSRNOT00000090908
RefSeq Acc Id: XP_038935622   ⟸   XM_039079694
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038935624   ⟸   XM_039079696
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038935625   ⟸   XM_039079697
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038935632   ⟸   XM_039079704
- Peptide Label: isoform X11
RefSeq Acc Id: XP_038935623   ⟸   XM_039079695
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038935626   ⟸   XM_039079698
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038935633   ⟸   XM_039079705
- Peptide Label: isoform X12
RefSeq Acc Id: XP_038935628   ⟸   XM_039079700
- Peptide Label: isoform X10
RefSeq Acc Id: XP_038935631   ⟸   XM_039079703
- Peptide Label: isoform X10
RefSeq Acc Id: XP_038935627   ⟸   XM_039079699
- Peptide Label: isoform X9
RefSeq Acc Id: XP_038935630   ⟸   XM_039079702
- Peptide Label: isoform X10
RefSeq Acc Id: XP_038935629   ⟸   XM_039079701
- Peptide Label: isoform X10

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)
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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)
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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306207 AgrOrtholog
Ensembl Genes ENSRNOG00000022778 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000052548 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000072231 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000055688 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000090908 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7099712 IMAGE-MGC_LOAD
InterPro Pphln1 UniProtKB/TrEMBL
KEGG Report rno:366975 UniProtKB/TrEMBL
MGC_CLONE MGC:187969 IMAGE-MGC_LOAD
NCBI Gene 366975 ENTREZGENE
PANTHER PTHR15836 UniProtKB/TrEMBL
PhenoGen Pphln1 PhenoGen
UniProt A0A0G2K2G1_RAT UniProtKB/TrEMBL
  B2GV12_RAT UniProtKB/TrEMBL
  D4A9M4 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Pphln1  periphilin 1   Pphln1_predicted  periphilin 1 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Pphln1_predicted  periphilin 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED