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 be located in Golgi apparatus and cytosol. Predicted to be active in nucleoplasm. Orthologous to human PPHLN1 (periphilin 1); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,6-dinitrotoluene; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously 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: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.27124,538,594 - 124,629,985 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl7124,538,627 - 124,629,985 (+)Ensembl
Rnor_6.07134,602,109 - 134,693,807 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7134,603,121 - 134,695,864 (+)EnsemblRnor6.0rn6Rnor6.0
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  (ISO)
Golgi apparatus  (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 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl7124,538,627 - 124,629,985 (+)Ensembl
Rnor_6.07134,602,109 - 134,693,807 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7134,603,121 - 134,695,864 (+)EnsemblRnor6.0rn6Rnor6.0
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
GRCh381242,326,167 - 42,448,621 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1242,238,447 - 42,459,715 (+)EnsemblGRCh38hg38GRCh38
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
ROS_Cfam_1.0 Ensembl2711,642,234 - 11,786,849 (-)Ensembl
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 - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11138,563,818 - 38,684,210 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl1138,563,866 - 38,684,030 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666037207,876,143 - 207,999,250 (-)NCBIVero_WHO_p1.0
Pphln1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462481610,190,505 - 10,229,846 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
RH131400  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27124,629,718 - 124,629,924 (+)MAPPERmRatBN7.2
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 (+)MAPPERmRatBN7.2
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)764002457135012528Rat
71114Niddm14Non-insulin dependent diabetes mellitus QTL 144.5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)784257275129257275Rat
631201Panci1Pancreas inflammation QTL 100.001pancreas integrity trait (VT:0010560)percentage of study population displaying chronic pancreatitis at a point in time (CMO:0001214)7116677189127103496Rat
1331731Bp216Blood pressure QTL 2162.851arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7102297359133492884Rat
1331748Bp215Blood pressure QTL 2154.043arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7112308254133492884Rat
1331768Kidm10Kidney mass QTL 104.62096kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)780221299125221299Rat
631663Bw6Body weight QTL 63.4body mass (VT:0001259)body weight (CMO:0000012)7111075573134976056Rat
631687Hcas1Hepatocarcinoma susceptibility QTL 13.90.001liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)791412594129807172Rat
1354582Stl11Serum triglyceride level QTL 113.42blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7119513385135012528Rat
2306821Bp335Blood pressure QTL 3350.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7106571501135012528Rat
731174Uae23Urinary albumin excretion QTL 232.40.0042urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)7104603555135012528Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)796670164135012528Rat
2298475Eau6Experimental allergic uveoretinitis QTL 60.0029uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)784257275129257275Rat
634322Bw12Body weight QTL 120body mass (VT:0001259)body weight (CMO:0000012)783153392128153392Rat
634331Pia17Pristane induced arthritis QTL 174.7joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)773829340130221005Rat
1357339Stl14Serum triglyceride level QTL 143.450.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7112729683133492707Rat
1300112Bp183Blood pressure QTL 1833.51arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)7111182207135012528Rat
1300179Kidm5Kidney mass QTL 53.51kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)743747012135012528Rat
2299163Iddm34Insulin dependent diabetes mellitus QTL 342.71blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)791281130135012528Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)790482196135012528Rat
1558655Swd4Spike wave discharge measurement QTL 43.680.0002brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge severity grade (CMO:0001988)786983365131983365Rat
2317052Aia17Adjuvant induced arthritis QTL 172.13joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)781737938126737938Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)783591953134666232Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)783591953134666232Rat

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
mRatBN7.2 Ensembl7124,539,447 - 124,629,982 (+)Ensembl
Rnor_6.0 Ensembl7134,603,122 - 134,693,804 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000090908   ⟹   ENSRNOP00000072231
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7124,539,447 - 124,629,985 (+)Ensembl
Rnor_6.0 Ensembl7134,603,121 - 134,695,864 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000098702   ⟹   ENSRNOP00000087331
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7124,538,627 - 124,629,982 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000102144   ⟹   ENSRNOP00000097952
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7124,539,447 - 124,629,982 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000115812   ⟹   ENSRNOP00000087420
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7124,539,447 - 124,629,982 (+)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_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_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_006242295   ⟸   XM_006242233
- Peptide Label: isoform X7
- 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
RefSeq Acc Id: ENSRNOP00000087331   ⟸   ENSRNOT00000098702
RefSeq Acc Id: ENSRNOP00000087420   ⟸   ENSRNOT00000115812
RefSeq Acc Id: ENSRNOP00000097952   ⟸   ENSRNOT00000102144

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A9M4-F1-model_v2 AlphaFold D4A9M4 1-410 view protein structure

Transcriptome

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


Strain Variation

Strain Sequence Variants (MRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306207 AgrOrtholog
BioCyc Gene G2FUF-32336 BioCyc
Ensembl Genes ENSRNOG00000022778 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000052548 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000072231 UniProtKB/TrEMBL
  ENSRNOP00000087331 ENTREZGENE
  ENSRNOP00000087420 ENTREZGENE
  ENSRNOP00000097952 ENTREZGENE
Ensembl Transcript ENSRNOT00000055688 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000090908 UniProtKB/TrEMBL
  ENSRNOT00000098702 ENTREZGENE
  ENSRNOT00000102144 ENTREZGENE
  ENSRNOT00000115812 ENTREZGENE
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