Rice Small RNA Library Information

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Code Title Technology Library Type Total
Sequences
Genome
Matched
Reads*
Distinct
Genome
Matched
Reads*
t/r/sn/snoRNA
Matched
Reads
Norm.
Base
Value
Max.
Len. of
Reads
Min.
Len. of
Reads
GEO
Accession
Number
G1_5 Total sRNA, extract from 1-5 days grain after fertilizationSBSsRNA640,003552,9131,713,52339,2642M3318GSM278571
G6_10 Total sRNA, extract from 6-10 days grain after fertilizationSBSsRNA582,848472,8241,713,52358,0342M3318GSM278572
AGO1a_IP sRNAs from AGO1a IP, extracted from 3-week-old seedlingsSBSsRNA3,791,0133,775,85822,09515,1262M3418GSM455962
AGO1b_IP sRNAs from AGO1b IP, extracted from 3-week-old seedlingsSBSsRNA1,230,6681,134,9824,48995,6862M2619GSM455963
AGO1c_IP sRNAs from AGO1c IP, extracted from 3-week-old seedlingsSBSsRNA3,891,6873,853,53615,31838,1512M2519GSM455964
AGO_CT sRNA control for IP, total small RNA extracted from 3-weeks-old seedlingsSBSsRNA4,029,4623,593,4611,959,081435,7312M2719GSM455965
AGO4a_IP sRNA from AGO4a IP, extracted from 3-week-old seedlingsSBSsRNA3,084,4102,614,0391,489,4558,5412M3018GSM520634
AGO4b_IP sRNA from AGO4b IP, extracted from 3-week-old seedlingsSBSsRNA7,503,1106,215,7733,312,99526,1442M3018GSM520635
AGO16_IP sRNA from AGO16 IP, extracted from 3-week-old seedlingsSBSsRNA6,950,5764,315,9251,672,62948,5042M3418GSM520636
dcl1_sdl sRNA from os dcl1, extracted from 3-week-old seedlingsSBSsRNA6,919,6713,923,7041,787,3431,658,4982M3118GSM520637
dcl3_sdl sRNA from os dcl3, extracted from 3-week-old seedlingsSBSsRNA7,863,1944,417,4821,594,5081,678,9842M3118GSM520638
rdr2_sdl sRNA from os rdr2, extracted from 3-week-old seedlingsSBSsRNA8,823,3923,614,261631,9921,549,8102M3118GSM520639
wt_sdl sRNA from wildtype, extracted from 3-week-old seedlingsSBSsRNA7,957,2204,407,2811,599,6731,326,9272M3118GSM520640
ME5a 14-day seedling leaf, Xoo inoculated, bacterial mutant ME5SBSsRNA4,592,7903,020,363329,578437,1612M3418
Pxo99a 14-day seedling leaf, Xoo inoculated, strain WR or PXO99ASBSsRNA7,362,8783,659,885721,065332,3182M3418
OsMock Rice leaves, mock treated with 10 mM MgCl2SBSsRNA4,734,1403,386,6621,009,539539,3222M3118
Leaf Rice leaf, from Zhonghua 10SBSsRNA10,777,3754,867,944617,1824,772,1112M3018
Root Rice root, from Zhonghua 10SBSsRNA10,424,0664,081,720974,2884,546,8002M3018
BCP Rice bicellular pollen, from Zhonghua 10SBSsRNA10,256,8524,264,6891,469,4984,724,0192M3018
Callus Rice callus cells, from Zhonghua 10SBSsRNA10,884,5334,868,1061,292,1134,289,5642M3018
TCP Rice tricellular pollen, from Zhonghua 10SBSsRNA12,212,9733,306,772569,1037,718,2482M3018
UNM Rice uninucleate microspores, from Zhonghua 10SBSsRNA5,513,7401,918,341956,9612,568,4932M3018
LACt1 leaves, Wildtype control for AGO mutant librarySBSsRNA6,270,2013,591,9021,236,5461,006,2672M3418
La706 leaves, argonaute mutant, T-DNA insertion in AGO706SBSsRNA3,265,9981,973,849825,851116,5212M3418
La706c Leaves, argonaute mutant in AGO706. Repeated SBS run.SBSsRNA2,236,1211,011,698472,81063,6002M3418
Lros1b Leaves, ros1 mutant. Repeated SBS run.SBSsRNA3,683,3451,505,920355,181149,0242M3418
LOsNpb Nipponbare leaf, sRNA librarySBSsRNA15,068,8568,209,7841,370,1753,532,6092M3418
OsTCP_b Rice tricellular pollen (TCP), from GEO record GSM722128SBSsRNA6,479,4842,868,603180,4341,753,1922M3418GSM722128
rdr6_HT rol_1, sterile, panicle of rdr6 grown in high temperatureSBSsRNA13,403,7849,960,3244,168,579591,14610M3518GSM648140
rdr6_LT rol_4, normal, panicle of rdr6 grown in low temperatureSBSsRNA13,517,2029,974,3023,856,982699,92110M3518GSM648142
zh_HT zh_1, normal, panicle of wildtype Zhonghua11 in high temperatureSBSsRNA15,926,14412,138,5494,234,530572,68110M3518GSM648139
zh_LT zh_4, normal, panicle of wildtype Zhonghua11 in low temperatureSBSsRNA15,795,92411,675,3224,129,233879,79010M3518GSM648141
704f Young inflorescence enclosed in sheaths from dcl4-1 mutant in 93-11 backgroundSBSsRNA3,487,1842,401,9891,428,9634,5872M2618GSM562945
704s 6-day old seedlings from dcl4-1 mutant in 93-11 backgroundSBSsRNA1,224,300905,849582,6954,4362M2618GSM562944
9311f young inflorescence enclosed in sheaths from wildtype 93-11SBSsRNA3,328,2062,312,4071,176,3402,9552M2618GSM562943
9311s 6-day old seedlings from wildtype 93-11SBSsRNA1,847,6421,418,197728,8645,7212M2618GSM562942
waf1-1 wavy leaf 1-1 (waf1-1), hen1 mutant alleleSBSsRNA45,297,54017,012,6222,779,55015,971,5275M3415GSM913520
waf1-2 wavy leaf 1-2 (waf1-2), hen1 mutant alleleSBSsRNA44,151,19915,733,0512,907,96515,246,8105M3415GSM913522
Wt_waf1-1 Wildtype control (for waf1-1)SBSsRNA51,198,09435,632,4665,269,1959,369,8725M3415GSM913521
Wt_waf1-2 Wildtype control (for waf1-2)SBSsRNA46,055,74529,837,7384,345,80310,609,5995M3415GSM913523
Wt_HEN1b wild type Dongjin control for hen1-3 alleleSBSsRNA23,979,62115,006,1082,245,5295,359,6545M3415GSM913525
Seg_Wt_HEN1b segregating wild type for hen1-3SBSsRNA37,538,20724,140,2022,780,1338,431,7485M3415GSM913526
Os hen1-3 Rice oshen1-3 mutant, T-DNASBSsRNA15,769,9084,817,170574,9986,017,6615M3415GSM913524
58N_1 Young panicles of Nongken 58, normal fertile lineSBSsRNA17,707,75515,794,3146,942,684494,9272M3418
58S_1 Young panicles of Nongken 58S, a male-sterile lineSBSsRNA19,936,96717,755,9797,603,674521,7412M3418
total_mel1 Small RNAs from total RNA of mel1 mutant young inflorescences, control for RIP-seqSBSsRNA4,950,9923,958,9201,703,812248,9705M3418
total_WT Small RNAs from total RNA of wildtype young inflorescences, control for RIP-seqSBSsRNA7,038,6435,860,2732,767,460333,4885M3418
MEL1IP_WT RIP-seq of MEL1-bound small RNAs, from wildtype young inflorescencesSBSsRNA13,594,33410,519,668920,4692,522,8685M3418
MEL1IP_mel1 RIP-seq of MEL1-bound small RNAs, from mel1 mutant young inflorescencesSBSsRNA65,04919,10512,10426,2365M3418
WTLamina Wildtype rice, material from lamina joints of the flag leafSBSsRNA31,885,56521,820,4438,892,3604,370,3578M3418SRX348485
3A1Lamina DCL3a-1 RNAi rice, material from lamina joints of flag leafSBSsRNA34,074,48920,177,3517,230,9175,576,2718M3418SRX348486
3A3Lamina DCL3a-3 RNAi rice, material from lamina joints of flag leafSBSsRNA44,077,38528,346,7619,692,8327,471,5128M3418SRX348487



* Does not include the data listed in the column "t/r/sn/snoRNA Matched Reads".