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piRBase Id | piR-mmu-41005 | Accession | DQ713043 |
---|---|---|---|
Organism | Mouse | Number of methods | 5 |
Sequence | TTACCACTTAGAACACAGGATGTCAGCGCC | Number of papers | 16 |
Length | 30 | Golden piRNA | - |
Aliases | piR-27887; piR-128365; PIR21886; PIR221691; |
Dataset | Accession | Reads | PubMed | Method | Tissue |
---|---|---|---|---|---|
4 | N/A | N/A | 16751776 | small RNA | testis |
6 | GSM113695 | 3 | 16778019 | Chromatography | testes tissue from Swiss Webster male mice, 8-10 weeks old |
11 | GSM822760 | 272 | 22121019 | Miwi IP | Testes, C57BL/6 Adult Miwi +/+ |
12 | GSM822758 | 2175 | 22121019 | Miwi IP | Testes, C57BL/6 P14 Miwi +/+ |
13 | GSM822759 | 577 | 22121019 | Miwi IP | Testes, C57BL/6 P20 Miwi +/+ |
14 | GSM822761 | 211 | 22121019 | Miwi IP | Testes, C57BL/6 Adult Miwi +/ADH |
15 | GSM822762 | 65 | 22121019 | Miwi IP | Testes, C57BL/6 Adult Miwi -/ADH |
16 | GSM822763 | 65 | 22121019 | Miwi IP | Testes, C57BL/6 Adult Miwi -/ADH |
17 | GSM822764 | 99 | 22121019 | Miwi IP | Testes, C57BL/6 Adult Miwi -/ADH |
31 | GSM684624 | 21 | 22842725 | Miwi CLIP | C57BL/6 adult testis |
32 | GSM684625 | 12 | 22842725 | Miwi CLIP | C57BL/6 adult testis |
33 | GSM684626 | 9 | 22842725 | Miwi CLIP | C57BL/6 adult testis |
34 | GSM684627 | 25 | 22842725 | Miwi CLIP | C57BL/6 adult testis |
36 | GSM684621 | 1 | 22842725 | Mili CLIP | C57BL/6 adult testis |
37 | GSM684622 | 41 | 22842725 | Mili CLIP | C57BL/6 adult testis |
51 | GSM610966 | 5 | 21602304 | small RNA | Male germ cell, Pachytene spermatocytes |
52 | GSM610967 | 3 | 21602304 | small RNA | Male germ cell, Round spermatids |
57 | GSM319953 | 26 | 18922463 | Mili IP | 10 dpp Dnmt3L heterozygotes testis |
58 | GSM319954 | 18 | 18922463 | Mili IP | 10 dpp Dnmt3L KO testis |
59 | GSM319955 | 9 | 18922463 | small RNA | 16.5 dpc testis |
61 | GSM319957 | 10 | 18922463 | Miwi2 IP | 16.5 dpc testis |
66 | GSM509275 | 16 | 20439430 | small RNA | MitoPLD+/+ E16.5 testis |
67 | GSM509276 | 5 | 20439430 | small RNA | MitoPLD-/- E16.5 testis |
68 | GSM509277 | 16 | 20439430 | small RNA | Mili-/- E16.5 testis |
69 | GSM509278 | 18 | 20439430 | small RNA | Miwi2-/- E16.5 testis |
70 | GSM509279 | 3 | 20439430 | small RNA | MVH-/- E16.5 testis |
71 | GSM509280 | 9 | 20439430 | small RNA | MitoPLD-/- 10 dpp testis |
72 | GSM179088 | 3 | 17446352 | Mili IP | 10 dpp testis |
76 | N/A | 2 | 22020280 | Mili IP | Miwi2DAH_2 E16.5 fetal testis |
80 | N/A | 3 | 22020280 | Mili IP | Miwi2-/-_2 E16.5 fetal testis |
81 | N/A | 1 | 22020280 | Mili IP | wild_type_1 E16.5 fetal testis |
82 | N/A | 1 | 22020280 | Mili IP | wild_type_2 E16.5 fetal testis |
85 | N/A | 2 | 22020280 | Miwi2 IP | Miwi2DAH_1 E16.5 fetal testis |
86 | N/A | 2 | 22020280 | Miwi2 IP | Miwi2DAH_2 E16.5 fetal testis |
88 | N/A | 4 | 22020280 | Miwi2 IP | wild_type_2 E16.5 fetal testis |
114 | GSM958035 | 3 | 22902560 | Mili IP | Fkbp6 +/-,P0,testis |
115 | GSM958036 | 11 | 22902560 | Mili IP | Fkbp6 -/-,P0,testis |
116 | GSM958037 | 175 | 22902560 | Mili IP | Fkbp6 +/-,P10,testis |
117 | GSM958038 | 420 | 22902560 | Mili IP | Fkbp6 -/-,P10,testis |
119 | GSM958040 | 1 | 22902560 | Mili IP | Tdrd1 -/-,E18,testis |
120 | GSM958041 | 12 | 22902560 | Miwi2 IP | Tdrd1 +/-,E18,testis |
224 | GSM1528806 | 23 | 26588211 | small RNA | 10dpp testes |
225 | GSM1528807 | 124 | 26588211 | small RNA | Adult testes Asb1 ao31(Het) |
226 | GSM1528808 | 222 | 26588211 | small RNA | Adult testes Asb1 ao32(KO) |
227 | GSM1528809 | 227 | 26588211 | small RNA | Adult testes Asb1 ao34(Het) |
228 | GSM1528810 | 194 | 26588211 | small RNA | Adult testes Asb1 ao36(KO) |
234 | GSM433288 | 108 | 26115953 | small RNA | 18dpp hetero tdrd6 KO testes |
235 | GSM433289 | 150 | 26115953 | small RNA | 18dpp homo tdrd6 KO testes |
236 | GSM433290 | 201 | 26115953 | small RNA | 25dpp hetero tdrd6 KO testes |
237 | GSM433291 | 28 | 26115953 | small RNA | 25dpp homo tdrd6 KO testes |
240 | GSM433294 | 6 | 26115953 | small RNA | 18.5dpc hetero tdrd1 KO testes |
246 | GSM1318059 | 261 | 25262350 | small RNA | E16.5 whole testes |
247 | GSM1318060 | 107 | 25262350 | small RNA | E16.5 whole testes Hsp90-alpha KO |
348 | GSM3772906 | 133 | 32674113 | small RNA | E16.5 testes(mixed B6CBAF1/Crl and C57BL/6N; control) |
349 | GSM3772907 | 93 | 32674113 | small RNA | E16.5 testes(mixed B6CBAF1/Crl and C57BL/6N; control) |
350 | GSM3772908 | 169 | 32674113 | small RNA | E16.5 testes(mixed B6CBAF1/Crl and C57BL/6N; control) |
351 | GSM3772909 | 130 | 32674113 | small RNA | E16.5 testes(mixed B6CBAF1/Crl and C57BL/6N; Spocd1-/-) |
352 | GSM3772910 | 166 | 32674113 | small RNA | E16.5 testes(mixed B6CBAF1/Crl and C57BL/6N; Spocd1-/-) |
353 | GSM3772911 | 109 | 32674113 | small RNA | E16.5 testes(mixed B6CBAF1/Crl and C57BL/6N; Spocd1-/-) |
361 | GSM2500213 | N/A | 31358756 | samll RNA(CAS-seq) | oocyte(age: 8 to 10 weeks old, female mice; B6D2F1) |
362 | GSM2500214 | 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) |
441 | GSM1096582 | 57 | 23523368 | small RNA | Wild Type 10.5 dpp testes |
442 | GSM1096599 | 738 | 23523368 | oxidized small RNA | Wild Type 10.5 dpp testes |
443 | GSM1096583 | 1279 | 23523368 | small RNA | Wild Type 12.5 dpp testes |
444 | GSM1096600 | 802 | 23523368 | oxidized small RNA | Wild Type 12.5 dpp testes |
445 | GSM1096584 | 917 | 23523368 | small RNA | Wild Type 14.5 dpp testes |
446 | GSM1096601 | 1265 | 23523368 | oxidized small RNA | Wild Type 14.5 dpp testes |
447 | GSM1096585 | 131 | 23523368 | small RNA | Wild Type 17.5 dpp testes |
448 | GSM1096602 | 101 | 23523368 | oxidized small RNA | Wild Type 17.5 dpp testes |
449 | GSM1096586 | 275 | 23523368 | small RNA | Wild Type 20.5 dpp testes |
450 | GSM1096603 | 175 | 23523368 | oxidized small RNA | Wild Type 20.5 dpp testes |
451 | GSM1096587 | 186 | 23523368 | small RNA | Wild Type 6 weeks dpp testes |
452 | GSM1096604 | 60 | 23523368 | oxidized small RNA | Wild Type 6 weeks dpp testes |
No. | Location | Gene | RepeatMaker |
---|---|---|---|
Location 1 | 6:69705277-69705307:+ | LINE L1 L1Lx_III; | |
Hits not all shown! To search for more loci, you can Run Bowtie here or Blat in UCSC |
Sample | CPM |
---|---|
GSM179088 | 16.5958 |
GSM261957 | 0 |
GSM261958 | 4.1103 |
GSM261959 | 0 |
GSM319953 | 19.5983 |
GSM319954 | 8.3684 |
GSM319955 | 5.4613 |
GSM319956 | 0 |
GSM319957 | 5.1538 |
GSM319958 | 0 |
GSM319959 | 0 |
GSM319960 | 0 |
GSM319961 | 0 |
GSM400967 | 0 |
Sample | CPM |
---|---|
GSM400968 | 0 |
GSM400969 | 0 |
GSM433288 | 25.2924 |
GSM433289 | 32.8111 |
GSM433290 | 42.6871 |
GSM433291 | 9.9604 |
GSM433292 | 34.038 |
GSM433293 | 46.3665 |
GSM433294 | 1.4079 |
GSM433295 | 0.2378 |
GSM475279 | 0 |
GSM475280 | 0 |
GSM475281 | 0 |
GSM678422 | 0 |
No record. |
No record. |
No record. |
No record. |
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 | 22842725 | Journal | Nat Struct Mol Biol. 2012 Aug;19(8):773-81. |
---|---|---|---|
Title | Mili and Miwi target RNA repertoire reveals piRNA biogenesis and function of Miwi in spermiogenesis. | ||
Authors | Vourekas A, Zheng Q, Alexiou P, Maragkakis M, Kirino Y, Gregory BD, Mourelatos Z. |
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 | 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. |