Include keywords: Exclude keywords: P value: Min. cleavage site(s): Show top cluster
on each transcript:
Sort:       
    

List view: phased small RNA clusters [#Session ID: 1208358282972606]

  Prev Page     Next Page     Page No. 1 / Total 12 Pages , 339 Records    
Cluster ID Phased small RNA(s) # of hit position
[phased:non-phased]
P-value Matched transcript Transcript description # of cleavage sites guided by input phase-initiator # of complementary regions
#110129 AAAGCGTCCTTTAGAAT;
AAGCGTCCTTTAGAATC;
AGAGAGTGCACTTTCTC;
ATGGTTGCGAAGTCAGG;
CAATTTCGCTCTCTGTA;
CTTTCTCTGGTGTCTTC;
GAGAGTGCACTTTCTCC;
GGTTGCGAAGTCAGGTG;
GTACTTTCTCTGGTGTC;
GTTGCGAAGTCAGGTGC;
TAATCAATTTCGCTCTC;
TATGACCGCTTCATGAA;
TCCTTGAGGCGTCTGCT;
TGACCGCTTCATGAACT;
TGAGAGAGTGCACTTTC;
TGCACTGCTTCATGCCT;
TGGGAGTTCATGAAGCG;
TGGTTGCGAAGTCAGGT;
TTGCACTGCTTCATGCC;
TTGCGAAGTCAGGTGCT
9 : 8 2.158e-7 LOC_Os12g42390.1|12012.m08018|cDNA hypothetical protein 0 0
#110128 AAAGCGTCCTTTAGAAT;
AAGCGTCCTTTAGAATC;
ATCCTTGAGGCGTCTGC;
ATGGTTGCGAAGTCAGG;
CTTTCTCTGGTGTCTTC;
GGTTGCGAAGTCAGGTG;
GTACTTTCTCTGGTGTC;
GTTGCGAAGTCAGGTGC;
TAATCAATTTCGCTCTC;
TCCTTGAGGCGTCTGCT;
TGACCGCTTCATGAACT;
TGAGAGAGTGCACTTTC;
TGCACTGCTTCATGCCT;
TGGGAGTTCATGAAGCG;
TGGTTGCGAAGTCAGGT;
TTGCACTGCTTCATGCC
9 : 10 6.877e-7 LOC_Os12g42390.1|12012.m08018|cDNA hypothetical protein 0 0
#110148 AAAGCGTCCTTTAGAAT;
AAGCGTCCTTTAGAATC;
AGAGAGTGCACTTTCTC;
ATCCTTGAGGCGTCTGC;
ATGGTTGCGAAGTCAGG;
GGTTGCGAAGTCAGGTG;
GTACTTTCTCTGGTGTC;
TAATCAATTTCGCTCTC;
TCCTTGAGGCGTCTGCT;
TGACCGCTTCATGAACT;
TGAGAGAGTGCACTTTC;
TGCACTGCTTCATGCCT;
TGGGAGTTCATGAAGCG;
TGGTTGCGAAGTCAGGT;
TTGCACTGCTTCATGCC
9 : 13 2.901e-6 LOC_Os12g42390.1|12012.m08018|cDNA hypothetical protein 0 0
#9661 ATCGCGACGCCTTTGCC;
CGGCAAAGGCGTCGCGA;
CGGCTCCCGCCACGCCC;
CGTAGCGGCGACAGCCA;
TCGAGGCAGCGTCCGCC;
TCGTCCTCAAGGCGTCG;
TGGCTGTCGCCGCTACG
7 : 5 5.482e-6 LOC_Os01g64140.1|12001.m12529|cDNA hypothetical protein 0 0
#92995 AATCGCAATTTTGGCCG;
CACCGTCTGCCACGTCA;
GGCAGACGGCGCGGTCG;
GTCGGCCAAAATTGCGA;
TGACGTGGCAGACGGTG
5 : 0 7.225e-6 LOC_Os11g10210.1|12011.m05218|cDNA hypothetical protein 0 0
#93003 AATCGCAATTTTGGCCG;
CACCGTCTGCCACGTCA;
GGCAGACGGCGCGGTCG;
GTCGGCCAAAATTGCGA;
TGACGTGGCAGACGGTG
5 : 0 7.225e-6 LOC_Os11g10210.1|12011.m05218|cDNA hypothetical protein 0 0
#4921 ACGTAGGCAAGACCACA;
ACTTAGGTCCACGAACT;
AGTTCGTGGACCTAAGT;
CACGTAGGCAAGACCAC;
GAGATCTCGATGCTCGT;
GTCATCGTCCACATGGC;
TGGCATGCCATGTGGAC
6 : 3 1.653e-5 LOC_Os01g31870.8|12001.m43026|cDNA metal transporter Nramp6, putative, expressed 0 4
#110127 AAAGCGTCCTTTAGAAT;
AAGCGTCCTTTAGAATC;
ATCCTTGAGGCGTCTGC;
ATGGTTGCGAAGTCAGG;
GGTTGCGAAGTCAGGTG;
GTACTTTCTCTGGTGTC;
TAATCAATTTCGCTCTC;
TCCTTGAGGCGTCTGCT;
TGACCGCTTCATGAACT;
TGCACTGCTTCATGCCT;
TGGGAGTTCATGAAGCG;
TGGTTGCGAAGTCAGGT;
TTGCACTGCTTCATGCC
8 : 12 1.918e-5 LOC_Os12g42390.1|12012.m08018|cDNA hypothetical protein 0 0
#51093 AATCGCAATTTTGGCCG;
CACCGTCTGCCACGTCA;
GGCAGACGGCGCGGTCG;
GTCGGCCAAAATTGCGA;
TGACGTGGCAGACGGTG
5 : 1 3.481e-5 LOC_Os06g14860.1|12006.m06201|cDNA hypothetical protein 0 1
#93966 AATCGCAATTTTGGCCG;
CACCGTCTGCCACGTCA;
GGCAGACGGCGCGGTCG;
GTCGGCCAAAATTGCGA;
TGACGTGGCAGACGGTG
5 : 1 3.481e-5 LOC_Os11g14500.1|12011.m05586|cDNA hypothetical protein 0 1
#225 AAATCGCAAGTTTAGCA;
CCAGTTCGAAAGGGTAC;
CGAACTGCCTCCGTTCG;
CTAAACTTGCGATTTCG;
GAACTGGGGCAGTTCGA;
GAACTGGGGCAGTTCGA;
GCTAAACTTGCGATTTC;
TGCTAAACTTGCGATTT
6 : 5 6.911e-5 LOC_Os01g02610.1|12001.m06903|cDNA protein kinase domain containing protein 2 9
#9665 ATCGCGACGCCTTTGCC;
CGGCAAAGGCGTCGCGA;
CGGCTCCCGCCACGCCC;
TCGAGGCAGCGTCCGCC;
TCGTCCTCAAGGCGTCG
5 : 2 0.0001 LOC_Os01g64140.1|12001.m12529|cDNA hypothetical protein 0 0
#110138 ATCCTTGAGGCGTCTGC;
ATGGTTGCGAAGTCAGG;
GGTTGCGAAGTCAGGTG;
GTACTTTCTCTGGTGTC;
TAATCAATTTCGCTCTC;
TCCTTGAGGCGTCTGCT;
TGACCGCTTCATGAACT;
TGCACTGCTTCATGCCT;
TGGGAGTTCATGAAGCG;
TGGTTGCGAAGTCAGGT;
TTGCACTGCTTCATGCC
7 : 11 0.0001 LOC_Os12g42390.1|12012.m08018|cDNA hypothetical protein 0 0
#110147 ATGGTTGCGAAGTCAGG;
GGTTGCGAAGTCAGGTG;
GTTGCGAAGTCAGGTGC;
TAATCAATTTCGCTCTC;
TCCTTGAGGCGTCTGCT;
TGACCGCTTCATGAACT;
TGCACTGCTTCATGCCT;
TGGGAGTTCATGAAGCG;
TGGTTGCGAAGTCAGGT;
TTGCACTGCTTCATGCC;
TTGCGAAGTCAGGTGCT
6 : 6 0.0001 LOC_Os12g42390.1|12012.m08018|cDNA hypothetical protein 0 0
#67908 AGTGCTATTCGGATATC;
ATTCGTATCCGTATCCG;
GTACCATATTCGTATTC;
GTGCTATTCGGATATCC;
TTGTCCGGAGCGGACGG
4 : 0 0.0002 LOC_Os07g43790.1|12007.m08604|cDNA retrotransposon protein, putative, unclassified 0 4
#49382 AGCCCGTCACGGATGAC;
AGTCATCTGTGACGGGC;
ATAGCCCGTCACAGATG;
GTCATCCGTGACGGGCT
4 : 0 0.0002 LOC_Os06g02650.1|12006.m04998|cDNA retrotransposon protein, putative, unclassified, expressed 0 3
#21884 ACCTGTGACGGGCCGCG;
CGCGGCCCGTCACAGGT;
GTCATCGGTGAGGCATC;
TCACCTGTGACGGGCCG
4 : 0 0.0002 LOC_Os03g29020.1|12003.m08173|cDNA transposon protein, putative, CACTA, En/Spm sub-class 0 2
#13370 ACGCGCAGATGTGCTAG;
AGCGGAAGAAGACGCTG;
CGCAGCGCGTCGAGTGG;
TCGCGAGAGTTCCTTCG
4 : 0 0.0002 LOC_Os02g17760.1|12002.m07020|cDNA cytochrome P450 71D8, putative, expressed 0 1
#13371 ACGCGCAGATGTGCTAG;
AGCGGAAGAAGACGCTG;
CGCAGCGCGTCGAGTGG;
TCGCGAGAGTTCCTTCG
4 : 0 0.0002 LOC_Os02g17760.1|12002.m07020|cDNA cytochrome P450 71D8, putative, expressed 0 1
#57605 AATCGCAATTTTGGCCG;
CACCGTCTGCCACGTCA;
GTCGGCCAAAATTGCGA;
TGACGTGGCAGACGGTG
4 : 0 0.0002 LOC_Os06g42390.1|12006.m08770|cDNA hypothetical protein 0 1
#57610 AATCGCAATTTTGGCCG;
CACCGTCTGCCACGTCA;
GTCGGCCAAAATTGCGA;
TGACGTGGCAGACGGTG
4 : 0 0.0002 LOC_Os06g42390.1|12006.m08770|cDNA hypothetical protein 0 1
#9666 ATCGCGACGCCTTTGCC;
CGGCAAAGGCGTCGCGA;
CGGCTCCCGCCACGCCC;
TCGTCCTCAAGGCGTCG
4 : 0 0.0002 LOC_Os01g64140.1|12001.m12529|cDNA hypothetical protein 0 0
#17254 AAGCAAGGCTCCCGTTT;
ACAGACCGGTTGAGTGC;
ATCCTCTTATCCCAGCC;
GGTCGAATGACTGATGG
4 : 0 0.0002 LOC_Os02g45300.1|12002.m09567|cDNA hypothetical protein 0 0
#103173 ATTGCGTCTGTAGCAGC;
CACAGGCAATTCAGAAA;
CTGCTACAGACGCAATC;
GCTGCTACAGACGCAAT;
GTAGACAATTGCCTATG;
TCGACTAGGTTACTGCA;
TGATGCCGCTGTGTACA;
TTGCTGCTACAGACGCA
6 : 7 0.0002 LOC_Os12g16350.13|12012.m26877|cDNA CHY1, putative, expressed 0 7
#103163 ATTGCGTCTGTAGCAGC;
CAGGAATCGAACGCGGG;
CTGCTACAGACGCAATC;
GCTGCTACAGACGCAAT;
GTAGACAATTGCCTATG;
TCGATTGCGTCTGTAGC;
TGATGCCGCTGTGTACA;
TTGCGTCTGTAGCAGCA;
TTGCTGCTACAGACGCA;
TTTTTGCGCTTTGCCTC;
TTTTTTGCGCTTTGCCT
6 : 8 0.0003 LOC_Os12g16350.13|12012.m26877|cDNA CHY1, putative, expressed 0 7
#54188 AAATCGCGAGACGAATC;
AGATTCGTCTCGCGATT;
ATGTTTGACCGGATGTC;
GATGTTTGACCGGATGT;
GATTCGTCTCGCGATTT;
GGGTTTTCGGACACGAA;
TCCGACATCCGGTCAAA;
TCGCCTGGAAACCGCGA
6 : 8 0.0003 LOC_Os06g27820.1|12006.m07327|cDNA expressed protein 0 3
#110136 AAGCGTCCTTTAGAATC;
AGAGAGTGCACTTTCTC;
CAATTTCGCTCTCTGTA;
CTGCTTCATGCCTTTCC;
CTTTCTCTGGTGTCTTC;
GAGAGTGCACTTTCTCC;
GGTTGCGAAGTCAGGTG;
GTTGCGAAGTCAGGTGC;
TATGACCGCTTCATGAA;
TGACCGCTTCATGAACT;
TGCACTGCTTCATGCCT;
TGGTTGCGAAGTCAGGT;
TTCTCTGGTGTCTTCCC;
TTGCGAAGTCAGGTGCT
7 : 14 0.0003 LOC_Os12g42390.1|12012.m08018|cDNA hypothetical protein 0 0
#4920 ACGTAGGCAAGACCACA;
ACTTAGGTCCACGAACT;
AGTTCGTGGACCTAAGT;
CACGTAGGCAAGACCAC;
GAGATCTCGATGCTCGT;
GTCATCGTCCACATGGC
5 : 4 0.0004 LOC_Os01g31870.8|12001.m43026|cDNA metal transporter Nramp6, putative, expressed 0 4
#54192 AAAGATTCGATGTGATG;
AAATCGCGAGACGAATC;
AGATTCGTCTCGCGATT;
GTGTCCGAAAACCCCTT;
TCGCCTGGAAACCGCGA
5 : 4 0.0004 LOC_Os06g27820.1|12006.m07327|cDNA expressed protein 0 3
#79633 AGCCATGCGGATTTCCT;
ATCCCCCCAGCCGTCCC;
CCTTCGGTTTGTGTGCG;
CTGTGCCTCGGGACATC;
GGCGGCTGAGAGGATGT
5 : 4 0.0004 LOC_Os09g10420.1|12009.m04307|cDNA retrotransposon protein, putative, unclassified 0 1
  Prev Page     Next Page     Page No. 1 / Total 12 Pages , 339 Records



Session Summary        
Users Input
Number of small RNAs submitted by user 30091,   download original FASTA file
Number of valid small RNAs after pre-processing 30091,   download processed FASTA file and LOG file
transcript/genomic library chosen by user Oryza sativa (rice) TIGR genome cDNA OSA1 Release 5(OSA1R5)
Number of phase-initiators submitted by user 275,   download original FASTA file
Number of valid phase-initiator sequences after pre-processing 142,   download processed FASTA file and LOG file
Mapping small RNAs onto transcript/genomic sequences
Number of total hits during mapping 110408
Number of small RNAs having hits 7176
Number of transcript/genomic sequences having hits 16898
Clustering phased small RNAs
Number of all phased small RNA clusters (having at least 2 phased small RNAs) 2012
Number of transcript/genomic sequences associated with the phased small RNA clusters 638
Identifying cleavage site
Number of phased small RNA clusters with valid cleavage sites directed by phase-initiators 82