Pan3 (poly(A) specific ribonuclease subunit PAN3) - Rat Genome Database
Submit Data |  Help |  Video Tutorials |  News |  Publications |  FTP Download |  REST API |  Citing RGD |  Contact   
Gene: Pan3 (poly(A) specific ribonuclease subunit PAN3) Rattus norvegicus
Analyze
Symbol: Pan3
Name: poly(A) specific ribonuclease subunit PAN3
RGD ID: 1590880
Description: Predicted to contribute to poly(A)-specific ribonuclease activity. Predicted to be involved in nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay; positive regulation of cytoplasmic mRNA processing body assembly; and protein targeting. Predicted to localize to P-body and PAN complex. Orthologous to human PAN3 (poly(A) specific ribonuclease subunit PAN3); PARTICIPATES IN microRNA pathway; RNA degradation pathway; INTERACTS WITH bisphenol A; C60 fullerene; oxaliplatin.
Type: protein-coding
RefSeq Status: MODEL
Also known as: LOC360760; PAB-dependent poly(A)-specific ribonuclease subunit PAN3; PAN3 poly(A) specific ribonuclease subunit; PAN3 polyA specific ribonuclease subunit homolog; PAN3 polyA specific ribonuclease subunit homolog (S. cerevisiae); similar to PABP-dependent poly(A) nuclease 3
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_6.0129,214,116 - 9,331,901 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl129,216,536 - 9,331,195 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01211,333,266 - 11,449,831 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4128,046,162 - 8,165,081 (-)NCBIRGSC3.4rn4RGSC3.4
Celera129,218,136 - 9,336,110 (-)NCBICelera
Cytogenetic Map12p11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cellular_component  (ND)
P-body  (IBA,ISO)
PAN complex  (IBA,ISO)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:12477932   PMID:14583602   PMID:18625844  


Genomics

Comparative Map Data
Pan3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.0129,214,116 - 9,331,901 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl129,216,536 - 9,331,195 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01211,333,266 - 11,449,831 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4128,046,162 - 8,165,081 (-)NCBIRGSC3.4rn4RGSC3.4
Celera129,218,136 - 9,336,110 (-)NCBICelera
Cytogenetic Map12p11NCBI
PAN3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1328,138,506 - 28,295,335 (+)EnsemblGRCh38hg38GRCh38
GRCh381328,135,021 - 28,295,335 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371328,710,997 - 28,869,475 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361327,646,417 - 27,767,472 (+)NCBINCBI36hg18NCBI36
Celera139,787,744 - 9,944,258 (+)NCBI
Cytogenetic Map13q12.2NCBI
HuRef139,533,856 - 9,690,407 (+)NCBIHuRef
CHM1_11328,681,211 - 28,837,730 (+)NCBICHM1_1
Pan3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395147,363,018 - 147,485,311 (+)NCBIGRCm39mm39
GRCm385147,426,208 - 147,548,501 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5147,430,161 - 147,548,502 (+)EnsemblGRCm38mm10GRCm38
MGSCv375148,242,156 - 148,360,077 (+)NCBIGRCm37mm9NCBIm37
MGSCv365147,741,238 - 147,858,845 (+)NCBImm8
Celera5145,424,005 - 145,541,898 (+)NCBICelera
Cytogenetic Map5G3NCBI
Pan3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554977,500,748 - 7,647,255 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554977,500,478 - 7,646,541 (+)NCBIChiLan1.0ChiLan1.0
PAN3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11327,797,325 - 27,921,266 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1327,798,607 - 27,921,266 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0139,420,405 - 9,579,859 (+)NCBIMhudiblu_PPA_v0panPan3
PAN3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl2511,417,657 - 11,550,810 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.12511,416,321 - 11,550,830 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Pan3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_00493647223,297,679 - 23,434,107 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PAN3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl115,486,889 - 5,614,454 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1115,487,019 - 5,614,458 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2115,173,907 - 5,301,062 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PAN3
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.137,249,596 - 7,405,770 (+)NCBI
ChlSab1.1 Ensembl37,249,298 - 7,405,910 (+)Ensembl
Pan3
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462477610,224,772 - 10,364,816 (-)NCBI

Position Markers
SGC34512  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0129,214,146 - 9,214,279NCBIRnor6.0
Rnor_6.0421,603,013 - 21,603,148NCBIRnor6.0
Rnor_5.01211,333,300 - 11,333,433UniSTSRnor5.0
Rnor_5.0421,535,195 - 21,535,330UniSTSRnor5.0
RGSC_v3.4128,046,196 - 8,046,329UniSTSRGSC3.4
RGSC_v3.4422,160,538 - 22,160,673UniSTSRGSC3.4
Celera129,218,170 - 9,218,303UniSTS
Celera420,152,579 - 20,152,714UniSTS
Cytogenetic Map4q12UniSTS
Cytogenetic Map12p11UniSTS
RH132266  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0129,214,188 - 9,214,384NCBIRnor6.0
Rnor_5.01211,333,342 - 11,333,538UniSTSRnor5.0
RGSC_v3.4128,046,238 - 8,046,434UniSTSRGSC3.4
Celera129,218,212 - 9,218,408UniSTS
Cytogenetic Map12p11UniSTS
RH143488  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0129,227,053 - 9,227,153NCBIRnor6.0
Rnor_5.01211,346,207 - 11,346,307UniSTSRnor5.0
RGSC_v3.4128,059,103 - 8,059,203UniSTSRGSC3.4
Celera129,231,077 - 9,231,177UniSTS
Cytogenetic Map12p11UniSTS
RH 3.4 Map1289.74UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300174Bw15Body weight QTL 152.93body mass (VT:0001259)body weight loss (CMO:0001399)12111765163Rat
2312418Kidm41Kidney mass QTL 413.70.0001kidney mass (VT:0002707)single kidney wet weight to body weight ratio (CMO:0000622)12122650917Rat
10450854Stl34Serum triglyceride level QTL 343.50.05blood LDL triglyceride amount (VT:0010699)blood lipoprotein triglyceride level (CMO:0002685)12122853017Rat
10755457Coatc14Coat color QTL 140.01759coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)12123035872Rat
6893681Bw109Body weight QTL 1092.30.004body mass (VT:0001259)body weight (CMO:0000012)12123758197Rat
1581516Cm56Cardiac mass QTL 564.20.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)12130749723Rat
1598855Bp294Blood pressure QTL 2943.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)12136919844Rat
7387292Kidm42Kidney mass QTL 423.030.0004kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)12138334225Rat
9590086Insglur6Insulin/glucose ratio QTL 618.970.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)1215081045150810Rat
9590147Scort7Serum corticosterone level QTL 713.610.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1215081045150810Rat
7411545Bw128Body weight QTL 1285.20.001body mass (VT:0001259)body weight gain (CMO:0000420)1215081045150810Rat
7411586Foco5Food consumption QTL 55.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)1215081045150810Rat
7411660Foco28Food consumption QTL 2810.90.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)1215081045150810Rat
7411595Foco9Food consumption QTL 940.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)1215081045150810Rat
8694179Bw150Body weight QTL 1502.90.001body mass (VT:0001259)body weight gain (CMO:0000420)1215081045150810Rat
2303575Insul14Insulin level QTL 144blood insulin amount (VT:0001560)blood insulin level (CMO:0000349)1249257845492578Rat
7243862Mcs30Mammary carcinoma susceptibility QTL 308.62mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)12125813910257059Rat
737979Pia22Pristane induced arthritis QTL 2253.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)12247568747475687Rat
634351Apr5Acute phase response QTL 56.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)12251344247513442Rat
2302042Pia38Pristane induced arthritis QTL 383.50.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)12251344247513442Rat
634350Apr4Acute phase response QTL 46orosomucoid 1 amount (VT:0010541)plasma orosomucoid 1 level (CMO:0001467)12421005149210051Rat
724526Uae3Urinary albumin excretion QTL 34.90.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)12540609412355490Rat
1600391Edcs2Endometrial carcinoma susceptibility QTL23.50.01uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)12824960820590080Rat
1302792Scl21Serum cholesterol level QTL 213.80.0011blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)12895459327911196Rat
7411547Bw129Body weight QTL 1290.001body mass (VT:0001259)body weight gain (CMO:0000420)6922362652716770Rat
7411588Foco6Food consumption QTL 60.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12922362652716770Rat
7411597Foco10Food consumption QTL 100.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12922362652716770Rat
7411641Foco19Food consumption QTL 1927.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12922362652716770Rat
8552918Pigfal7Plasma insulin-like growth factor 1 level QTL 7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12922362652716770Rat
8552964Pigfal17Plasma insulin-like growth factor 1 level QTL 173.5blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12922362652716770Rat
8552912Pigfal6Plasma insulin-like growth factor 1 level QTL 65blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12922363052716770Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:166
Count of miRNA genes:122
Interacting mature miRNAs:134
Transcripts:ENSRNOT00000001250, ENSRNOT00000044134, ENSRNOT00000071838
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 38 44 28 19 28 6 6 74 34 41 11 6
Low 5 13 13 13 2 5 1 2
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_001068449 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006221249 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006221250 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006248842 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006248844 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006248845 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008758840 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_346914 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AABR07035271 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07035272 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07035273 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01071027 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01071028 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01071029 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01071030 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01071031 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01071032 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01071033 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01071034 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC091375 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC103655 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ233080 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000044134   ⟹   ENSRNOP00000040388
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl129,216,536 - 9,331,195 (-)Ensembl
RefSeq Acc Id: XM_001068449   ⟹   XP_001068449
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera129,218,136 - 9,336,110 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006221249   ⟹   XP_006221311
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera129,218,136 - 9,336,110 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006221250   ⟹   XP_006221312
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera129,218,136 - 9,336,110 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006248842   ⟹   XP_006248904
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0129,214,116 - 9,331,897 (-)NCBI
Rnor_5.01211,333,266 - 11,449,831 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006248844   ⟹   XP_006248906
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0129,214,116 - 9,331,896 (-)NCBI
Rnor_5.01211,333,266 - 11,449,831 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006248845   ⟹   XP_006248907
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0129,222,821 - 9,331,901 (-)NCBI
Rnor_5.01211,333,266 - 11,449,831 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008758840   ⟹   XP_008757062
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera129,226,138 - 9,336,110 (-)NCBI
Sequence:
RefSeq Acc Id: XM_346914   ⟹   XP_346915
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0129,214,116 - 9,331,896 (-)NCBI
Rnor_5.01211,333,266 - 11,449,831 (-)NCBI
RGSC_v3.4128,046,162 - 8,165,081 (-)RGD
Sequence:
Reference Sequences
RefSeq Acc Id: XP_001068449   ⟸   XM_001068449
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_346915   ⟸   XM_346914
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_006221311   ⟸   XM_006221249
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006221312   ⟸   XM_006221250
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006248904   ⟸   XM_006248842
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006248906   ⟸   XM_006248844
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006248907   ⟸   XM_006248845
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_008757062   ⟸   XM_008758840
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: ENSRNOP00000040388   ⟸   ENSRNOT00000044134
Protein Domains
Protein kinase

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (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: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (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)
SS/JrHsdMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
12 9240682 9240683 T G snv SHR/NHsd (RGD)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1590880 AgrOrtholog
Ensembl Genes ENSRNOG00000000942 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000040388 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000044134 ENTREZGENE, UniProtKB/TrEMBL
InterPro Kinase-like_dom UniProtKB/TrEMBL
  PAN3 UniProtKB/TrEMBL
  Pan3_PK UniProtKB/TrEMBL
  Prot_kinase_cat_dom UniProtKB/TrEMBL
NCBI Gene 360760 ENTREZGENE
PANTHER PTHR12272 UniProtKB/TrEMBL
Pfam Pan3_PK UniProtKB/TrEMBL
PhenoGen Pan3 PhenoGen
PROSITE PROTEIN_KINASE_DOM UniProtKB/TrEMBL
SMART S_TKc UniProtKB/TrEMBL
Superfamily-SCOP Kinase_like UniProtKB/TrEMBL
UniProt D4ADM2_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2018-05-04 Pan3  poly(A) specific ribonuclease subunit PAN3  Pan3  PAN3 poly(A) specific ribonuclease subunit  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2014-04-11 Pan3  PAN3 poly(A) specific ribonuclease subunit  Pan3  PAN3 polyA specific ribonuclease subunit homolog (S. cerevisiae)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-05 Pan3  PAN3 polyA specific ribonuclease subunit homolog (S. cerevisiae)  LOC360760  similar to PABP-dependent poly(A) nuclease 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC360760  similar to PABP-dependent poly(A) nuclease 3      Symbol and Name status set to provisional 70820 PROVISIONAL