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Detail Information of piRNA: piR-mmu-60735

General Information
piRBase Id piR-mmu-60735 Accession DQ564085
Organism Mouse Number of methods 4
Sequence TACAAAGTGAGTTCCAGGACAGCCAGGGC Number of papers 16
Length 29 Golden piRNA Y
Aliases piR-4173; PIR25196;
Datasets
Dataset Accession Reads PubMed Method Tissue
4 N/A N/A 16751776 small RNA testis
6 GSM113695 1 16778019 Chromatography testes tissue from Swiss Webster male mice, 8-10 weeks old
11 GSM822760 2 22121019 Miwi IP Testes, C57BL/6 Adult Miwi +/+
12 GSM822758 18 22121019 Miwi IP Testes, C57BL/6 P14 Miwi +/+
13 GSM822759 1 22121019 Miwi IP Testes, C57BL/6 P20 Miwi +/+
14 GSM822761 7 22121019 Miwi IP Testes, C57BL/6 Adult Miwi +/ADH
15 GSM822762 18 22121019 Miwi IP Testes, C57BL/6 Adult Miwi -/ADH
16 GSM822763 118 22121019 Miwi IP Testes, C57BL/6 Adult Miwi -/ADH
17 GSM822764 1 22121019 Miwi IP Testes, C57BL/6 Adult Miwi -/ADH
50 GSM610965 845 21602304 small RNA Male germ cell, Type A spermatogonia
51 GSM610966 240 21602304 small RNA Male germ cell, Pachytene spermatocytes
52 GSM610967 95 21602304 small RNA Male germ cell, Round spermatids
57 GSM319953 740 18922463 Mili IP 10 dpp Dnmt3L heterozygotes testis
58 GSM319954 619 18922463 Mili IP 10 dpp Dnmt3L KO testis
59 GSM319955 10 18922463 small RNA 16.5 dpc testis
60 GSM319956 1 18922463 Mili IP 16.5 dpc testis
61 GSM319957 65 18922463 Miwi2 IP 16.5 dpc testis
66 GSM509275 28 20439430 small RNA MitoPLD+/+ E16.5 testis
67 GSM509276 6 20439430 small RNA MitoPLD-/- E16.5 testis
68 GSM509277 43 20439430 small RNA Mili-/- E16.5 testis
69 GSM509278 24 20439430 small RNA Miwi2-/- E16.5 testis
70 GSM509279 81 20439430 small RNA MVH-/- E16.5 testis
71 GSM509280 316 20439430 small RNA MitoPLD-/- 10 dpp testis
72 GSM179088 128 17446352 Mili IP 10 dpp testis
73 N/A 443 22020280 Mili IP Mili_MiliDAH_1 E16.5 fetal testis
74 N/A 1127 22020280 Mili IP Mili_MiliDAH_2 E16.5 fetal testis
75 N/A 629 22020280 Mili IP Miwi2DAH_1 E16.5 fetal testis
76 N/A 111 22020280 Mili IP Miwi2DAH_2 E16.5 fetal testis
77 N/A 489 22020280 Mili IP Miwi2+/-_1 E16.5 fetal testis
78 N/A 84 22020280 Mili IP Miwi2+/-_2 E16.5 fetal testis
79 N/A 35 22020280 Mili IP Miwi2-/-_1 E16.5 fetal testis
80 N/A 65 22020280 Mili IP Miwi2-/-_2 E16.5 fetal testis
81 N/A 42 22020280 Mili IP wild_type_1 E16.5 fetal testis
82 N/A 27 22020280 Mili IP wild_type_2 E16.5 fetal testis
83 N/A 45 22020280 Miwi2 IP MiliDAH_1 E16.5 fetal testis
84 N/A 14 22020280 Miwi2 IP MiliDAH_2 E16.5 fetal testis
85 N/A 64 22020280 Miwi2 IP Miwi2DAH_1 E16.5 fetal testis
86 N/A 1309 22020280 Miwi2 IP Miwi2DAH_2 E16.5 fetal testis
87 N/A 640 22020280 Miwi2 IP wild_type_1 E16.5 fetal testis
88 N/A 128 22020280 Miwi2 IP wild_type_2 E16.5 fetal testis
114 GSM958035 475 22902560 Mili IP Fkbp6 +/-,P0,testis
115 GSM958036 35 22902560 Mili IP Fkbp6 -/-,P0,testis
116 GSM958037 30119 22902560 Mili IP Fkbp6 +/-,P10,testis
117 GSM958038 3986 22902560 Mili IP Fkbp6 -/-,P10,testis
119 GSM958040 29 22902560 Mili IP Tdrd1 -/-,E18,testis
120 GSM958041 198 22902560 Miwi2 IP Tdrd1 +/-,E18,testis
132 GSM475279 42 20022248 Miwi IP adult testis
133 GSM475280 54 20022248 Mili IP adult testis
224 GSM1528806 4362 26588211 small RNA 10dpp testes
225 GSM1528807 10 26588211 small RNA Adult testes Asb1 ao31(Het)
226 GSM1528808 17 26588211 small RNA Adult testes Asb1 ao32(KO)
227 GSM1528809 36 26588211 small RNA Adult testes Asb1 ao34(Het)
228 GSM1528810 29 26588211 small RNA Adult testes Asb1 ao36(KO)
234 GSM433288 22 26115953 small RNA 18dpp hetero tdrd6 KO testes
235 GSM433289 30 26115953 small RNA 18dpp homo tdrd6 KO testes
236 GSM433290 29 26115953 small RNA 25dpp hetero tdrd6 KO testes
237 GSM433291 6 26115953 small RNA 25dpp homo tdrd6 KO testes
240 GSM433294 152 26115953 small RNA 18.5dpc hetero tdrd1 KO testes
246 GSM1318059 47 25262350 small RNA E16.5 whole testes
247 GSM1318060 8 25262350 small RNA E16.5 whole testes Hsp90-alpha KO
345 GSM475279 42 20022248 Miwi-IP testis 
346 GSM475280 54 20022248 Mili-IP testis 
347 GSM475281 3 20022248 small RNA testis 
348 GSM3772906 849 32674113 small RNA E16.5 testes(mixed B6CBAF1/Crl and C57BL/6N; control)
349 GSM3772907 909 32674113 small RNA E16.5 testes(mixed B6CBAF1/Crl and C57BL/6N; control)
350 GSM3772908 884 32674113 small RNA E16.5 testes(mixed B6CBAF1/Crl and C57BL/6N; control)
351 GSM3772909 638 32674113 small RNA E16.5 testes(mixed B6CBAF1/Crl and C57BL/6N; Spocd1-/-)
352 GSM3772910 586 32674113 small RNA E16.5 testes(mixed B6CBAF1/Crl and C57BL/6N; Spocd1-/-)
353 GSM3772911 393 32674113 small RNA E16.5 testes(mixed B6CBAF1/Crl and C57BL/6N; Spocd1-/-)
360 GSM2500212 N/A 31358756 samll RNA(CAS-seq) oocyte(age: 8 to 10 weeks old, female mice; B6D2F1)
361 GSM2500213 N/A 31358756 samll RNA(CAS-seq) oocyte(age: 8 to 10 weeks old, female mice; B6D2F1)
363 GSM2500215 N/A 31358756 samll RNA(CAS-seq) oocyte(age: 8 to 10 weeks old, female mice; B6D2F1)
364 GSM2500216 N/A 31358756 samll RNA(CAS-seq) oocyte(age: 8 to 10 weeks old, female mice; B6D2F1)
365 GSM2500217 N/A 31358756 samll RNA(CAS-seq) oocyte(age: 8 to 10 weeks old, female mice; B6D2F1)
441 GSM1096582 269 23523368 small RNA Wild Type 10.5 dpp testes
442 GSM1096599 17633 23523368 oxidized small RNA Wild Type 10.5 dpp testes
443 GSM1096583 6538 23523368 small RNA Wild Type 12.5 dpp testes
444 GSM1096600 37597 23523368 oxidized small RNA Wild Type 12.5 dpp testes
445 GSM1096584 4827 23523368 small RNA Wild Type 14.5 dpp testes
446 GSM1096601 51552 23523368 oxidized small RNA Wild Type 14.5 dpp testes
447 GSM1096585 101 23523368 small RNA Wild Type 17.5 dpp testes
448 GSM1096602 174 23523368 oxidized small RNA Wild Type 17.5 dpp testes
449 GSM1096586 135 23523368 small RNA Wild Type 20.5 dpp testes
450 GSM1096603 226 23523368 oxidized small RNA Wild Type 20.5 dpp testes
451 GSM1096587 126 23523368 small RNA Wild Type 6 weeks dpp testes
452 GSM1096604 48 23523368 oxidized small RNA Wild Type 6 weeks dpp testes
Location in GRCm38
24376 best hit(s) with 0 mismatch(es) in GRCm38
No. Location Gene RepeatMaker
Location 1 4:90385833-90385862:+
Hits not all shown! To search for more loci, you can Run Bowtie here or Blat in UCSC
piRNA Expression
Sample CPM
GSM179088 708.086
GSM261957 0
GSM261958 1.6441
GSM261959 0
GSM319953 557.7985
GSM319954 287.7793
GSM319955 6.0681
GSM319956 2.1202
GSM319957 33.4998
GSM319958 0
GSM319959 0
GSM319960 0
GSM319961 0
GSM400967 0
Sample CPM
GSM400968 0
GSM400969 0
GSM433288 5.1522
GSM433289 6.5622
GSM433290 6.1588
GSM433291 2.1344
GSM433292 3.4038
GSM433293 2.1269
GSM433294 35.6669
GSM433295 3.3297
GSM475279 4.0342
GSM475280 4.9097
GSM475281 0.2814
GSM678422 0.0531
The Expression of piRNA: piR-mmu-60735
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P value calculation
Sample1
Sample2
Target mRNA
Target gene Target trans Mechanism Target site Verified PubMed
Isg20l2 NM_177663 cleavage mm9 chr3:87744049-87744069:+ n 25582079
Target lncRNA
Target gene Target trans Mechanism Target site Verified PubMed
NONMMUT010153 cleavage mm9 chr11:62356182-62356202:- n N/A
NONMMUT021455 cleavage mm9 chr14:70558074-70558094:+ n N/A
Gm36814 ENSMUST00000199991.1 NONMMUT052251 cleavage mm9 chr5:50931156-50931176:- n N/A
NONMMUT061211 cleavage mm9 chr7:53090518-53090538:+ n N/A
Target Network
Disease Information
No record.
Reference
PubMed 16751776 Journal Nature. 2006 Jul 13;442(7099):199-202.
Title A germline-specific class of small RNAs binds mammalian Piwi proteins
Authors Girard A, Sachidanandam R, Hannon GJ, Carmell MA.
PubMed 16778019 Journal Science. 2006 Jul 21;313(5785):363-7.
Title Characterization of the piRNA complex from rat testes.
Authors Lau NC, Seto AG, Kim J, Kuramochi-Miyagawa S, Nakano T, Bartel DP, Kingston RE.
PubMed 22121019 Journal Nature. 2011 Nov 27;480(7376):264-7.
Title Miwi catalysis is required for piRNA amplification-independent LINE1 transposon silencing.
Authors Reuter M, Berninger P, Chuma S, Shah H, Hosokawa M, Funaya C, Antony C, Sachidanandam R, Pillai RS.
PubMed 21602304 Journal RNA. 2011 Jul;17(7):1191-203.
Title piRNA profiling during specific stages of mouse spermatogenesis.
Authors Gan H, Lin X, Zhang Z, Zhang W, Liao S, Wang L, Han C.
PubMed 18922463 Journal Mol Cell. 2008 Sep 26;31(6):785-99.
Title A piRNA pathway primed by individual transposons is linked to de novo DNA methylation in mice.
Authors Aravin AA, Sachidanandam R, Bourc'his D, Schaefer C, Pezic D, Toth KF, Bestor T, Hannon GJ.
PubMed 20439430 Journal Genes Dev. 2010 May;24(9):887-92.
Title MVH in piRNA processing and gene silencing of retrotransposons.
Authors Kuramochi-Miyagawa S, Watanabe T, Gotoh K, Takamatsu K, Chuma S, Kojima-Kita K, Shiromoto Y, Asada N, Toyoda A, Fujiyama A, Totoki Y, Shibata T, Kimura T, Nakatsuji N, Noce T, Sasaki H, Nakano T.
PubMed 17446352 Journal Science. 2007 May 4;316(5825):744-7.
Title Developmentally regulated piRNA clusters implicate MILI in transposon control.
Authors Aravin AA, Sachidanandam R, Girard A, Fejes-Toth K, Hannon GJ.
PubMed 22020280 Journal Nature. 2011 Oct 23;480(7376):259-63.
Title The endonuclease activity of Mili fuels piRNA amplification that silences LINE1 elements.
Authors De Fazio S, Bartonicek N, Di Giacomo M, Abreu-Goodger C, Sankar A, Funaya C, Antony C, Moreira PN, Enright AJ, O'Carroll D.
PubMed 22902560 Journal Mol Cell. 2012 Sep 28;47(6):970-9.
Title A role for Fkbp6 and the chaperone machinery in piRNA amplification and transposon silencing.
Authors Xiol J, Cora E, Koglgruber R, Chuma S, Subramanian S, Hosokawa M, Reuter M, Yang Z, Berninger P, Palencia A, Benes V, Penninger J, Sachidanandam R, Pillai RS.
PubMed 20022248 Journal Curr Biol. 2009 Dec 29;19(24):2066-76.
Title A broadly conserved pathway generates 3'UTR-directed primary piRNAs.
Authors Robine N, Lau NC, Balla S, Jin Z, Okamura K, Kuramochi-Miyagawa S, Blower MD, Lai EC.
PubMed 26588211 Journal PLoS Genet. 2015 Nov 20;11(11):e1005652
Title Conserved piRNA Expression from a Distinct Set of piRNA Cluster Loci in Eutherian Mammals
Authors Chirn GW,Rahman R,Sytnikova YA,Matts JA,Zeng M,Gerlach D,Yu M,Berger B,Naramura M, Kile BT,Lau NC.
PubMed 26115953 Journal Genes Dev. 2015 Jul 1; 29(13): 1403?415
Title RNF17 blocks promiscuous activity of PIWI proteins in mouse testes
Authors Wasik KA, Tam OH, Knott SR, Falciatori I, Hammell M, Vagin VV, Hannon GJ
PubMed 25262350 Journal Nucleic Acids Res. 2014 Oct 29;42(19):11903-11
Title HSP90a plays an important role in piRNA biogenesis and retrotransposon repression in mouse.
Authors Ichiyanagi T,Ichiyanagi K,Ogawa A,Kuramochi-Miyagawa S,Nakano T,Chuma S,Sasaki H,Udono H.
PubMed 32674113 Journal Nature. 2020 Aug;584(7822):635-639. doi: 10.1038/s41586-020-2557-5.
Title SPOCD1 is an essential executor of piRNA-directed de novo DNA methylation.
Authors Zoch A, Auchynnikava T, Berrens RV, Kabayama Y, Schöpp T, Heep M, Vasiliauskaitė L, Pérez-Rico YA, Cook AG, Shkumatava A, Rappsilber J, Allshire RC, O'Carroll D.
PubMed 31358756 Journal Nat Commun. 2019 Jul 29;10(1):3389. doi: 10.1038/s41467-019-11312-8.
Title Single-cell CAS-seq reveals a class of short PIWI-interacting RNAs in human oocytes.
Authors Yang Q, Li R, Lyu Q, Hou L, Liu Z, Sun Q, Liu M, Shi H, Xu B, Yin M, Yan Z,Huang Y, Liu M, Li Y, Wu L.
PubMed 23523368 Journal Mol Cell. 2013 Apr 11;50(1):67-81. doi: 10.1016/j.molcel.2013.02.016.
Title An ancient transcription factor initiates the burst of piRNA production during early meiosis in mouse testes
Authors Li XZ, Roy CK, Dong X, Bolcun-Filas E et al.
PubMed 25582079 Journal Cell Res. 2015 Feb;25(2):193-207.
Title MIWI and piRNA-mediated cleavage of messenger RNAs in mouse testes.
Authors Zhang P, Kang JY, Gou LT, Wang J, Xue Y, Skogerboe G, Dai P, Huang DW, Chen R, Fu XD, Liu MF, He S.