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Configure Tracks on UCSC Genome Browser: Mouse Dec. 2011 (GRCm38/mm10)
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-   piRNA Tracks    
Base Position Chromosome position in bases. (Clicks here zoom in 3x)
Mouse piRNAs Mouse piRNAs
Girard Nature 2006 Girard Nature 2006 piRNAs
Aravin Nature 2006 Aravin Nature 2006 piRNAs
Lau Science 2006 Lau Science 2006 piRNAs
Grivna Genes Dev. 2006 Grivna Genes Dev. 2006 piRNAs
gsRNA gsRNA piRNAs
Adult Miwi +/+ Reuter Nature 2011 Adult Miwi +/+
P14 Miwi +/+ Reuter Nature 2011 P14 Miwi +/+
P20 Miwi +/+ Reuter Nature 2011 P20 Miwi +/+
Adult Miwi +/ADH Reuter Nature 2011 Adult Miwi +/ADH
Adult Miwi -/ADH 1 Reuter Nature 2011 Adult Miwi -/ADH rep1
Adult Miwi -/ADH 2 Reuter Nature 2011 Adult Miwi -/ADH rep2
Adult Miwi -/ADH 3 Reuter Nature 2011 Adult Miwi -/ADH rep3
Miwi CLIP 1 Vourekas Nat Struct Mol Biol 2012 Miwi CLIP rep1
Miwi CLIP 2 Vourekas Nat Struct Mol Biol 2012 Miwi CLIP rep2
Miwi CLIP 3 Vourekas Nat Struct Mol Biol 2012 Miwi CLIP rep3
Miwi CLIP 4 Vourekas Nat Struct Mol Biol 2012 Miwi CLIP rep4
Mili CLIP 1 Vourekas Nat Struct Mol Biol 2012 Mili CLIP rep1
Mili CLIP 2 Vourekas Nat Struct Mol Biol 2012 Mili CLIP rep2
Mili CLIP 3 Vourekas Nat Struct Mol Biol 2012 Mili CLIP rep3
Mili CLIP 4 Vourekas Nat Struct Mol Biol 2012 Mili CLIP rep4
Type A spermatogonia Gan RNA 2011 Type A spermatogonia
Pachytene spermatocytes Gan RNA 2011 Pachytene spermatocytes
Round spermatids Gan RNA 2011 Round spermatids
10 dpp Mili IP Aravin Mol Cell 2008 10 dpp Mili IP
10 dpp Dnmt3L KO Mili IP Aravin Mol Cell 2008 10 dpp Dnmt3L KO Mili IP
16.5dpc small RNA Aravin Mol Cell 2008 16.5dpc small RNA
16.5dpc Mili IP Aravin Mol Cell 2008 16.5dpc Mili IP
16.5dpc Miwi2 IP Aravin Mol Cell 2008 16.5dpc Miwi2 IP
4-6 week ovary small RNA Aravin Mol Cell 2008 4-6 week ovary small RNA
2dpp testis small RNA Aravin Mol Cell 2008 2dpp testis small RNA
10dpp Mili heterozygotes testis Aravin Mol Cell 2008 10dpp Mili heterozygotes testis
10dpp Mili KO testis Aravin Mol Cell 2008 10dpp Mili KO testis
E16.5 MitoPLD+/+ testis Kuramochi-Miyagawa Genes Dev 2010 E16.5 MitoPLD+/+ testis
E16.5 MitoPLD-/- testis Kuramochi-Miyagawa Genes Dev 2010 E16.5 MitoPLD-/- testis
E16.5 Mili-/- testis Kuramochi-Miyagawa Genes Dev 2010 E16.5 Mili-/- testis
E16.5 Miwi2-/- testis Kuramochi-Miyagawa Genes Dev 2010 E16.5 Miwi2-/- testis
E16.5 MVH-/- testis Kuramochi-Miyagawa Genes Dev 2010 E16.5 MVH-/- testis
10 dpp MitoPLD-/- testis Kuramochi-Miyagawa Genes Dev 2010 10 dpp MitoPLD-/- testis
10 dpp testis Mili IP Aravin Science 2007 10 dpp testis Mili IP
MiliDAH E16.5 Mili piRNA De Fazio S Nature 2011 MiliDAH E16.5 testis Mili piRNA
MiliDAH_2 E16.5 testis De Fazio S Nature 2011 MiliDAH_2 E16.5 testis
Miwi2DAH E16.5 Mili piRNA De Fazio S Nature 2011 Miwi2DAH E16.5 testis Mili piRNA
Miwi2DAH_2 E16.5 testis De Fazio S Nature 2011 Miwi2DAH_2 E16.5 testis
Miwi2+/- E16.5 Mili piRNA De Fazio S Nature 2011 Miwi2+/- E16.5 testis Mili piRNA
Miwi2+/-_2 E16.5 testis De Fazio S Nature 2011 Miwi2+/-_2 E16.5 testis
Miwi2-/- E16.5 Mili piRNA De Fazio S Nature 2011 Miwi2-/- E16.5 testis Mili piRNA
Miwi2-/-_2 E16.5 testis De Fazio S Nature 2011 Miwi2-/-_2 E16.5 testis
wild_type E16.5 Mili piRNA De Fazio S Nature 2011 wild_type E16.5 testis Mili piRNA
wild_type_2 E16.5 testis De Fazio S Nature 2011 wild_type_2 E16.5 testis
MiliDAH E16.5 Miwi2 piRNA De Fazio S Nature 2011 MiliDAH E16.5 testis Miwi2 piRNA
MiliDAH_2 E16.5 testis De Fazio S Nature 2011 MiliDAH_2 E16.5 testis
Miwi2DAH E16.5 Miwi2 piRNA De Fazio S Nature 2011 Miwi2DAH E16.5 testis Miwi2 piRNA
Miwi2DAH E16.5 Miwi2 piRNA 2 De Fazio S Nature 2011 Miwi2DAH E16.5 testis Miwi2 piRNA 2
wild_type E16.5 Miwi2 piRNA De Fazio S Nature 2011 wild_type E16.5 testis Miwi2 piRNA
wild_type_2 E16.5 testis De Fazio S Nature 2011 wild_type_2 E16.5 testis
Fkbp6+/- P0 testis Xiol J Mol Cell 2012 Fkbp6+/- P0 testis
Fkbp6-/- P0 testis Xiol J Mol Cell 2012 Fkbp6-/- P0 testis
Fkbp6+/- P10 testis Xiol J Mol Cell 2012 Fkbp6+/- P10 testis
Fkbp6-/- P10 testis Xiol J Mol Cell 2012 Fkbp6-/- P10 testis
Tdrd1+/- E18 testis Xiol J Mol Cell 2012 Tdrd1+/- E18 testis
Tdrd1-/- E18 testis Xiol J Mol Cell 2012 Tdrd1-/- E18 testis
Tdrd1+/- E18 testis Xiol J Mol Cell 2012 Tdrd1+/- E18 testis
wild type adult testis Zheng K PNAS 2010 wild type adult testis Mov10L1 IP
hippocampus Lee EJ RNA 2011 hippocampus
Tdrd9+/- 14dpp testis 1 Shoji M Dev Cell 2009 Tdrd9+/- 14dpp testis rep1
Tdrd9+/- 14dpp testis 2 Shoji M Dev Cell 2009 Tdrd9+/- 14dpp testis rep2
Tdrd9-/- 14dpp testis 1 Shoji M Dev Cell 2009 Tdrd9-/- 14dpp testis rep1
Tdrd9-/- 14dpp testis 2 Shoji M Dev Cell 2009 Tdrd9-/- 14dpp testis rep2
adult testis Miwi-IP Robine Curr Biol 2009 adult testis Miwi-IP
adult testis Mili-IP Robine Curr Biol 2009 adult testis Mili-IP
elongating spermatids Gou Cell Res 2014 elongating spermatids
round spermatids Zhang Cell Res 2015 round spermatids
10dpp testes Chirn PLoS Genet 2015 10dpp testes
Adult testes Asb1 ao31(Het) Chirn PLoS Genet 2015 Adult testes Asb1 ao31(Het)
Adult testes Asb1 ao32(KO) Chirn PLoS Genet 2015 Adult testes Asb1 ao32(KO)
Adult testes Asb1 ao34(Het) Chirn PLoS Genet 2015 Adult testes Asb1 ao34(Het)
Adult testes Asb1 ao36(KO) Chirn PLoS Genet 2015 Adult testes Asb1 ao36(KO)
18dpp hetero tdrd6-KO Wasik Genes Dev 2015 18dpp hetero tdrd6-KO
18dpp homo tdrd6-KO Wasik Genes Dev 2015 18dpp homo tdrd6-KO
25dpp hetero tdrd6-KO Wasik Genes Dev 2015 25dpp hetero tdrd6-KO
25dpp homo tdrd6-KO Wasik Genes Dev 2015 25dpp homo tdrd6-KO
6w hetero tdrd6-KO Wasik Genes Dev 2015 6w hetero tdrd6-KO
6w homo tdrd6-KO Wasik Genes Dev 2015 6w homo tdrd6-KO
18.5dpc hetero tdrd6-KO Wasik Genes Dev 2015 18.5dpc hetero tdrd6-KO
18.5dpc homo tdrd6-KO Wasik Genes Dev 2015 18.5dpc homo tdrd6-KO
liver 3' UTR Yamtich BMC Genomics 2015 liver 3' UTR piRNAs
spleen 3' UTR Yamtich BMC Genomics 2015 spleen 3' UTR piRNAs
MIWI2 KO liver 3' UTR Yamtich BMC Genomics 2015 MIWI2 KO liver 3' UTR piRNAs
MIWI2 KO spleen 3' UTR Yamtich BMC Genomics 2015 MIWI2 KO spleen 3' UTR piRNAs
E16.5 whole testes Ichiyanagi Nucleic Acids Res 2014 E16.5 whole testes
Hsp90-alpha KO Ichiyanagi Nucleic Acids Res 2014 E16.5 whole testes Hsp90-alpha KO
-   piRNA function    
B6NCrl forebrain 13.5 days H3K9me3 B6NCrl forebrain embryonic 13.5 days H3K9me3 Nature 2012 ENCODE DCC
B6NCrl forebrain ENCLB010BMG H3K9me3 B6NCrl forebrain ENCLB010BMG embryonic 15.5 day H3K9me3 Nature 2012
B6NCrl forebrain ENCLB031MGV H3K9me3 B6NCrl forebrain ENCLB031MGV embyonic 16.5 day H3K9me3 Nature 2012
B6NCrl forebrain ENCLB277YNG H3K9me3 B6NCrl forebrain ENCLB277YNG embryonic 13.5 day H3K9me3 Nature 2012
B6NCrl forebrain ENCLB486BSA H3K9me3 B6NCrl forebrain ENCLB486BSA embyonic 16.5 day H3K9me3 Nature 2012
B6NCrl forebrain ENCLB594CEI H3K9me3 B6NCrl forebrain ENCLB594CEI embryonic 15.5 H3K9me3 Nature 2012
B6NCrl forebrain ENCLB594CEI H3K9me3 B6NCrl forebrain ENCLB594CEI embryonic 15.5 day H3K9me3 Nature 2012
B6NCrl forebrain ENCLB629XAA H3K9me3 Mus musculus B6NCrl forebrain ENCLB629XAA H3K9me3 ChIP-Seq Nature 2016 ENCODE DCC
B6NCrl forebrain ENCLB641MQG H3K9me3 B6NCrl forebrain ENCLB641MQG embyronic 11.5 day H3K9me3 Nature 2012
B6NCrl forebrain ENCLB668MMN H3K9me3 B6NCrl forebrain ENCLB668MMN embryonic 12.5 day H3K9me3 H3K9me3
B6NCrl forebrain ENCLB812OFN H3K9me3 B6NCrl forebrain ENCLB812OFN embryonic 12.5 day H3K9me3
B6NCrl hindbrain 15.5 days H3K9me3 B6NCrl hindbrain embryonic 15.5 days H3K9me3 Nature 2012
B6NCrl hindbrain ENCLB042JAS H3K9me3 B6NCrl hindbrain ENCLB042JAS H3K9me3 embryonic 12.5 day Nature 2012
B6NCrl hindbrain ENCLB126DGA H3K9me3 B6NCrl hindbrain ENCLB126DGA embryonic 13.5 days H3K9me3 Nature 2012
B6NCrl hindbrain ENCLB238KEC H3K9me3 B6NCrl hindbrain ENCLB238KEC B6NCrl hindbrain ENCLB238KEC embyronic 11.5 day H3K9me3 Nature 2012
B6NCrl hindbrain ENCLB392QHR H3K9me3 B6NCrl hindbrain ENCLB392QHR embyronic 11.5 day H3K9me3 Nature 2012
B6NCrl hindbrain ENCLB397YWO H3K9me3 B6NCrl hindbrain ENCLB397YWO H3K9me3 Nature 2012
B6NCrl hindbrain ENCLB402NEG H3K9me3 B6NCrl hindbrain ENCLB402NEG embryonic 10.5 day H3K9me3
B6NCrl hindbrain ENCLB577KNZ H3K9me3 B6NCrl hindbrain ENCLB577KNZ embryonic 16.5 day H3K9me3 embryonic 16.5 day
B6NCrl hindbrain ENCLB706VIO H3K9me3 B6NCrl hindbrain ENCLB706VIO embryonic 15.5 day H3K9me3 Nature 2012
B6NCrl hindbrain ENCLB874JFG H3K9me3 B6NCrl hindbrain embryonic 13.5 days H3K9me3 Nature 2012 ENCLB874JFG
B6NCrl midbrain 11.5 days H3K9me3 B6NCrl midbrain embyronic mice 11.5 days H3K9me3 Nature 2012
B6NCrl midbrain ENCLB029SEB H3K9me3 B6NCrl midbrain ENCLB029SEB embryonic 13.5 day H3K9me3 Nature 2012
B6NCrl midbrain ENCLB052JFK H3K9me3 B6NCrl midbrain ENCLB052JFK embyonic 16.5 day H3K9me3 Nature 2012
B6NCrl midbrain ENCLB191UYY H3K9me3 B6NCrl midbrain ENCLB191UYY embryonic 13.5 day H3K9me3 Nature 2012
B6NCrl midbrain ENCLB259DQN H3K9me3 B6NCrl midbrain ENCLB259DQN embryonic 12.5 day H3K9me3 Nature 2012
B6NCrl midbrain ENCLB411IWB H3K9me3 B6NCrl midbrain ENCLB411IWB embyronic 11.5 day H3K9me3 Nature 2012
B6NCrl midbrain ENCLB441GHB H3K9me3 B6NCrl midbrain ENCLB441GHB embryonic 12.5 day H3K9me3 Nature 2012
B6NCrl midbrain ENCLB507BQU H3K9me3 B6NCrl midbrain ENCLB507BQU embryonic 16.5 days H3K9me3 Nature 2012
B6NCrl midbrain ENCLB842JVG H3K9me3 B6NCrl midbrain ENCLB842JVG embryonic 15.5 day H3K9me3 Nature 2012
B6NCrl midbrain ENCLB992DHZ H3K9me3 B6NCrl midbrain ENCLB992DHZ embryonic 15.5 day H3K9me3 Nature 2012
B6NTac ENCLB379NXP H3K9me3 B6NTac forebrain ENCLB379NXP H3K9me3 Nature 2012
B6NTac ENCLB837TWG H3K9me3 B6NTac ENCLB837TWG H3K9me3 ChIP-Seq Nature 2012
B6NTac forebrain ENCLB540QFI H3K9me3 B6NTac forebrain ENCLB540QFI embyonic 14.5 day H3K9me3 Nature 2012
B6NTac forebrain ENCLB974CDP H3K9me3 B6NTac forebrain ENCLB974CDP H3K9me3 Nature 2012
B6NTac forebrain ENCLB983EYB H3K9me3 B6NTac forebrain ENCLB983EYB H3K9me3 Nature 2012
B6NTac hindbrain ENCLB010ZXU H3K9me3 B6NTac hindbrain ENCLB010ZXU pooled postnatal 0 day H3K9me3 Nature 2012
B6NTac hindbrain ENCLB803WLX H3K9me3 B6NTac hindbrain ENCLB803WLX embryonic 14.5 day H3K9me3 Nature 2012
B6NTac hindbrain ENCLB831UUR H3K9me3 B6NTac hindbrain ENCLB831UUR embryonic 14.5 day H3K9me3 Nature 2012
B6NTac midbrain ENCLB064ABA H3K9me3 B6NTac midbrain ENCLB064ABA H3K9me3 ChIP-Seq Nature 2012
B6NTac midbrain ENCLB082GTF H3K9me3 B6NTac midbrain ENCLB082GTF H3K9me3 Nature 2012
B6NTac midbrain ENCLB097XEN H3K9me3 B6NTac midbrain ENCLB097XEN embryonic 14.5 day H3K9me3 Nature 2012
B6NTac midbrain ENCLB257KRY H3K9me3 B6NTac midbrain ENCLB257KRY embryonic 14.5 day H3K9me3 Nature 2012
hindbrain ENCLB767WUA H3K9me3 hindbrain ENCLB767WUA embyonic 16.5 day H3K9me3 Nature 2012
midbrain ENCLB050TQJ H3K9me3 midbrain ENCLB050TQJ 69 embryonic 10.5 day H3K9me3 Nature 2012
midbrain ENCLB614JTQ H3K9me3 ChIP-Seq Mus musculus midbrain ENCLB614JTQ 51 embryonic H3K9me3 ChIP-Seq Nature 2012
Mus musculus ENCBS790BBA H3K9me3 ChIP-Seq Mus musculus ENCBS790BBA H3K9me3 ChIP-Seq Nature 2016 ENCODE DCC
Taeniopygia guttata brain H3K9me3 ChIP-Seq Taeniopygia guttata brain H3K9me3 ChIP-Seq Proc Biol Sci 2018 Sarah E London
ES piRNA Target Sites Gou Cell Res 2014 ES piRNA Target Sites
RS piRNA Cleavage Sites Zhang Cell Res 2015 RS piRNA Cleavage Sites
5' Race Testis 5' Race
RS piRNA Cleavage Target lncRNAs RS piRNA Cleavage Target lncRNAs Sites
-   Mapping and Sequencing    
Assembly Assembly from Fragments
Chromosome Band Chromosome Bands Based On Microscopy
Gap Gap Locations
GC Percent GC Percent in 5-Base Windows
GRC Incident GRC Incident Database
Short Match Perfect Matches to Short Sequence ()
-   Genes and Gene Predictions    
GENCODE (Ensembl)... GENCODE Gene Annotations (Ensembl)
     All GENCODE VM16     All GENCODE annotations from VM16 (Ensembl 91)
NCBI RefSeq RefSeq gene predictions from NCBI
MIWI piRNA cluster Girard Nature 2006 MIWI piRNA cluster
MILI piRNA cluster Aravin Nature 2006 MILI piRNA cluster
Mouse piRNA cluster Lau Science 2006 piRNA cluster
piRNA precursor Li Mol Cell 2013 piRNA precursor
-   mRNA and EST    
Mouse ESTs Mouse ESTs Including Unspliced
Mouse mRNAs Mouse mRNAs from GenBank
-   Variation and Repeats    
RepeatMasker Repeating Elements by RepeatMasker