Piwil2 (piwi-like RNA-mediated gene silencing 2) - Rat Genome Database

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Gene: Piwil2 (piwi-like RNA-mediated gene silencing 2) Rattus norvegicus
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Symbol: Piwil2
Name: piwi-like RNA-mediated gene silencing 2
RGD ID: 1306964
Description: Predicted to enable RNA binding activity; RNA endonuclease activity; and polysome binding activity. Predicted to be involved in several processes, including negative regulation of transposition; nucleic acid metabolic process; and positive regulation of protein metabolic process. Predicted to act upstream of or within oogenesis and positive regulation of meiosis I. Predicted to be located in several cellular components, including cytoplasmic ribonucleoprotein granule; dense body; and perinucleolar chromocenter. Predicted to be part of PET complex. Predicted to be active in P granule. Orthologous to human PIWIL2 (piwi like RNA-mediated gene silencing 2); INTERACTS WITH 6-propyl-2-thiouracil; bisphenol A; endosulfan.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC306011; piwi like homolog 2; piwi like homolog 2 (Drosophila); piwi-like 2; piwi-like 2 (Drosophila); piwi-like protein 2
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
mRatBN7.21545,431,402 - 45,498,034 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1545,431,703 - 45,497,702 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1549,549,570 - 49,615,564 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01550,661,059 - 50,727,061 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01547,520,373 - 47,586,368 (-)NCBIRnor_WKY
Rnor_6.01552,037,693 - 52,116,277 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1552,037,693 - 52,116,001 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01555,760,496 - 55,839,763 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41550,757,820 - 50,823,943 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11550,775,399 - 50,839,987 (-)NCBI
Celera1545,111,291 - 45,176,770 (-)NCBICelera
Cytogenetic Map15p11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:14736746   PMID:16751777   PMID:17446352   PMID:18381894   PMID:18404146   PMID:18922463   PMID:19114715   PMID:19730684   PMID:20011505   PMID:20014101   PMID:20059948   PMID:20439430  
PMID:21193640   PMID:21539824   PMID:22020280   PMID:22110608   PMID:23706823   PMID:26617784   PMID:26669262   PMID:27856912   PMID:28025795   PMID:28633017   PMID:28903391  


Genomics

Comparative Map Data
Piwil2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21545,431,402 - 45,498,034 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1545,431,703 - 45,497,702 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1549,549,570 - 49,615,564 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01550,661,059 - 50,727,061 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01547,520,373 - 47,586,368 (-)NCBIRnor_WKY
Rnor_6.01552,037,693 - 52,116,277 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1552,037,693 - 52,116,001 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01555,760,496 - 55,839,763 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41550,757,820 - 50,823,943 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11550,775,399 - 50,839,987 (-)NCBI
Celera1545,111,291 - 45,176,770 (-)NCBICelera
Cytogenetic Map15p11NCBI
PIWIL2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38822,275,316 - 22,357,568 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl822,275,316 - 22,357,568 (+)EnsemblGRCh38hg38GRCh38
GRCh37822,132,829 - 22,215,081 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36822,188,796 - 22,269,545 (+)NCBINCBI36Build 36hg18NCBI36
Build 34822,188,800 - 22,269,529NCBI
Celera821,095,224 - 21,174,910 (+)NCBICelera
Cytogenetic Map8p21.3NCBI
HuRef820,675,010 - 20,755,706 (+)NCBIHuRef
CHM1_1822,334,485 - 22,415,561 (+)NCBICHM1_1
T2T-CHM13v2.0822,549,271 - 22,631,533 (+)NCBIT2T-CHM13v2.0
Piwil2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391470,609,926 - 70,674,338 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1470,609,926 - 70,666,832 (-)EnsemblGRCm39 Ensembl
GRCm381470,372,477 - 70,436,898 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1470,372,477 - 70,429,383 (-)EnsemblGRCm38mm10GRCm38
MGSCv371470,772,287 - 70,828,901 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361469,107,560 - 69,164,174 (-)NCBIMGSCv36mm8
Celera1467,913,743 - 67,970,583 (-)NCBICelera
Cytogenetic Map14D2NCBI
Piwil2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540345,737,674 - 45,819,873 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540345,737,674 - 45,819,478 (+)NCBIChiLan1.0ChiLan1.0
PIWIL2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1818,459,052 - 18,546,688 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl818,463,173 - 18,544,186 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0821,520,166 - 21,608,374 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PIWIL2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12534,911,120 - 34,987,287 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2534,912,358 - 34,987,339 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2535,501,009 - 35,577,016 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02535,122,157 - 35,198,747 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2535,123,395 - 35,198,755 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12535,068,198 - 35,144,239 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02534,922,162 - 34,998,398 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02535,077,336 - 35,153,884 (-)NCBIUU_Cfam_GSD_1.0
Piwil2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494312,435,718 - 12,493,669 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365556,078,681 - 6,133,020 (+)EnsemblSpeTri2.0
SpeTri2.0NW_0049365556,078,681 - 6,133,184 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PIWIL2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl146,560,565 - 6,632,523 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1146,560,402 - 6,632,524 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2146,994,765 - 7,064,683 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PIWIL2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1820,347,998 - 20,436,016 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl820,352,771 - 20,433,947 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605221,799,635 - 21,889,513 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Piwil2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475817,834,191 - 17,902,575 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475817,834,268 - 17,911,886 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Piwil2
140 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:261
Count of miRNA genes:176
Interacting mature miRNAs:218
Transcripts:ENSRNOT00000013284
Prediction methods:Microtar, 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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2298549Neuinf12Neuroinflammation QTL 123.5nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)15155302115Rat
738017Hcas7Hepatocarcinoma susceptibility QTL 72.91liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)15226636846921453Rat
1582251Gluco24Glucose level QTL 243.20.0008blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)15553075650530756Rat
631273Lecl2Lens clarity QTL 20.001lens clarity trait (VT:0001304)age of onset/diagnosis of cataract (CMO:0001584)151059608955596089Rat
2300167Bmd63Bone mineral density QTL 635.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)151111114256111142Rat
2300173Bmd62Bone mineral density QTL 6212.80.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)151111114256111142Rat
2293688Bss29Bone structure and strength QTL 295.310.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)151111114256111142Rat
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151249614165205939Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151672552880672115Rat
1331729Rf42Renal function QTL 423.071kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)151736289773690657Rat
2324620Coatc3Coat color QTL 3coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)151985656646187442Rat
10054130Srcrt8Stress Responsive Cort QTL 82.180.0085blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)152211793367117933Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)152280624098288169Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)152280624098288169Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)152280624098288169Rat
1582214Stl21Serum triglyceride level QTL 213.10.022blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)152803066582262678Rat
1582227Gluco30Glucose level QTL 303.60.0003blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)152803066582262678Rat
1582228Epfw3Epididymal fat weight QTL 34.10.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)152803066582262678Rat
1582242Gluco28Glucose level QTL 283.30.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)152803066582262678Rat
1582244Bw79Body weight QTL 7940.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)152803066582262678Rat
2293691Bmd37Bone mineral density QTL 376.60.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)153361105871477291Rat
2293686Bmd36Bone mineral density QTL 367.40.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)153361105871477291Rat
1598828Glom14Glomerulus QTL 142.5kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)153405413979054139Rat
7411725Strs7Sensitivity to stroke QTL 73.8cerebrum integrity trait (VT:0010549)percentage of study population developing cerebrovascular lesions during a period of time (CMO:0000932)154028990149308583Rat
2306968Anxrr23Anxiety related response QTL 234.83reflex trait (VT:0001961)amplitude of the acoustic startle response (CMO:0001520)154063126846187442Rat
1300144Rf23Renal function QTL 233.61renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)154063126898288169Rat


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 21
Low 3 41 20 12 13 12 1 1 66 14 20 11 1
Below cutoff 30 22 6 22 7 10 8 21 7

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000013284   ⟹   ENSRNOP00000013284
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1545,431,703 - 45,497,702 (-)Ensembl
Rnor_6.0 Ensembl1552,037,693 - 52,116,001 (-)Ensembl
RefSeq Acc Id: NM_001107276   ⟹   NP_001100746
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21545,431,703 - 45,497,702 (-)NCBI
Rnor_6.01552,037,992 - 52,115,978 (-)NCBI
Rnor_5.01555,760,496 - 55,839,763 (-)NCBI
RGSC_v3.41550,757,820 - 50,823,943 (-)RGD
Celera1545,111,291 - 45,176,770 (-)RGD
Sequence:
RefSeq Acc Id: XM_006252271   ⟹   XP_006252333
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21545,431,402 - 45,498,033 (-)NCBI
Rnor_6.01552,037,693 - 52,116,276 (-)NCBI
Rnor_5.01555,760,496 - 55,839,763 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008770828   ⟹   XP_008769050
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21545,431,402 - 45,498,034 (-)NCBI
Rnor_6.01552,037,693 - 52,116,277 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001100746 (Get FASTA)   NCBI Sequence Viewer  
  XP_006252333 (Get FASTA)   NCBI Sequence Viewer  
  XP_008769050 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM02216 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001100746   ⟸   NM_001107276
- UniProtKB: D3ZRE1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006252333   ⟸   XM_006252271
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008769050   ⟸   XM_008770828
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000013284   ⟸   ENSRNOT00000013284
Protein Domains
PAZ   Piwi

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZRE1-F1-model_v2 AlphaFold D3ZRE1 1-971 view protein structure

Transcriptome

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

Promoters
RGD ID:13699808
Promoter ID:EPDNEW_R10331
Type:single initiation site
Name:Piwil2_1
Description:piwi-like RNA-mediated gene silencing 2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01552,115,989 - 52,116,049EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306964 AgrOrtholog
BioCyc Gene G2FUF-13227 BioCyc
Ensembl Genes ENSRNOG00000009871 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000013284 ENTREZGENE
  ENSRNOP00000013284.2 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000013284 ENTREZGENE
  ENSRNOT00000013284.5 UniProtKB/TrEMBL
Gene3D-CATH 3.30.420.10 UniProtKB/TrEMBL
InterPro ArgoL1 UniProtKB/TrEMBL
  PAZ UniProtKB/TrEMBL
  PAZ_dom_sf UniProtKB/TrEMBL
  Piwi UniProtKB/TrEMBL
  PolynucTfrase_RNaseH_fold UniProtKB/TrEMBL
  RNaseH_sf UniProtKB/TrEMBL
KEGG Report rno:306011 UniProtKB/TrEMBL
NCBI Gene 306011 ENTREZGENE
Pfam ArgoL1 UniProtKB/TrEMBL
  PAZ UniProtKB/TrEMBL
  Piwi UniProtKB/TrEMBL
PhenoGen Piwil2 PhenoGen
PROSITE PAZ UniProtKB/TrEMBL
  PIWI UniProtKB/TrEMBL
SMART DUF1785 UniProtKB/TrEMBL
  PAZ UniProtKB/TrEMBL
  Piwi UniProtKB/TrEMBL
Superfamily-SCOP PAZ UniProtKB/TrEMBL
  RNaseH_fold UniProtKB/TrEMBL
UniProt D3ZRE1 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-02-27 Piwil2  piwi-like RNA-mediated gene silencing 2  Piwil2  piwi-like 2 (Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-09 Piwil2  piwi-like 2 (Drosophila)  Piwil2  piwi like homolog 2 (Drosophila)   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Piwil2  piwi like homolog 2 (Drosophila)   Piwil2_predicted  piwi like homolog 2 (Drosophila) (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Piwil2_predicted  piwi like homolog 2 (Drosophila) (predicted)      Symbol and Name status set to approved 70820 APPROVED