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: 1208290094293941]

  Prev Page     Next Page     Page No. 1 / Total 4 Pages , 101 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
#1197 ATGTGTTCAAGTAAATG;
ATTTTCTAAGATCCACC;
GTAACTGTATTAGCAAC;
TAAGTAACTGTATTAGC;
TATTCCAGGATATGCAA;
TCCAATGTCTTTTCTAG;
TCGGTGGATCTTAGAAA;
TTCAAGTCGTCTAAAGA;
TTCTAAGTCCAACATAG;
TTCTAAGTTCAACATAT;
TTTCAAGTCGTCTAAAG
9 : 10 6.877e-7 AT2G39675.1 | Symbols: TAS1C | TAS1C; other RNA | chr2:16544366-16545355 REVERSE 2 10
#1204 ATGTGTTCAAGTAAATG;
ATTTTCTAAGATCCACC;
GTAACTGTATTAGCAAC;
TAAGTAACTGTATTAGC;
TATTCCAGGATATGCAA;
TCCAATGTCTTTTCTAG;
TCGGTGGATCTTAGAAA;
TTCAAGTCGTCTAAAGA;
TTCTAAGTCCAACATAG;
TTCTAAGTTCAACATAT;
TTTCAAGTCGTCTAAAG
9 : 10 6.877e-7 AT2G39675.1 | Symbols: TAS1C | TAS1C; other RNA | chr2:16544366-16545355 REVERSE 2 10
#1220 ACACGATGTTCAATAGA;
GATGGTAGTTCAAGTAT;
TATGGGATTAAAGACCT;
TCCAAGCGAATGATGAT;
TGTTGATCGGATGGTAG;
TTCTACCATCCGATCAA;
TTGTTGATCGGATGGTA
6 : 1 1.905e-6 AT2G39681.1 | Symbols: TAS2 | TAS2; other RNA | chr2:16546462-16547495 REVERSE 1 11
#1215 ACACGATGTTCAATAGA;
GATGGTAGTTCAAGTAT;
TATGGGATTAAAGACCT;
TGTTGATCGGATGGTAG;
TGTTTACTAAAACAAAG;
TTCTACCATCCGATCAA;
TTGTTGATCGGATGGTA
6 : 3 1.653e-5 AT2G39681.1 | Symbols: TAS2 | TAS2; other RNA | chr2:16546462-16547495 REVERSE 1 11
#1209 ATGTGTTCAAGTAAATG;
GTAACTGTATTAGCAAC;
TAAGTAACTGTATTAGC;
TATTCCAGGATATGCAA;
TCCAATGTCTTTTCTAG;
TTCAAGTCGTCTAAAGA;
TTCTAAGTCCAACATAG;
TTCTAAGTTCAACATAT;
TTTCAAGTCGTCTAAAG
7 : 9 5.150e-5 AT2G39675.1 | Symbols: TAS1C | TAS1C; other RNA | chr2:16544366-16545355 REVERSE 2 10
#1231 ATTTTCTAAGATCTTAT;
TCCAATGCTTTTTCTAG;
TGATTGGATCTTAGGAA;
TTCTAAGTCCAACATAG;
TTTTAAGTCTAACATAG
5 : 2 0.0001 AT2G27400.1 | Symbols: TAS1A | TAS1A; other RNA | chr2:11728617-11729546 REVERSE 1 9
#1221 TATGGGATTAAAGACCT;
TGTTGATCGGATGGTAG;
TGTTTACTAAAACAAAG;
TTATCAAGATCCATCTT;
TTCTACCATCCGATCAA
5 : 2 0.0001 AT2G39681.1 | Symbols: TAS2 | TAS2; other RNA | chr2:16546462-16547495 REVERSE 0 11
#1224 TATGGGATTAAAGACCT;
TGTTGATCGGATGGTAG;
TGTTTACTAAAACAAAG;
TTATCAAGATCCATCTT;
TTCTACCATCCGATCAA
5 : 2 0.0001 AT2G39681.1 | Symbols: TAS2 | TAS2; other RNA | chr2:16546462-16547495 REVERSE 0 11
#2166 AAGCTTGATCTTTGTGT;
AATTCTGTTATGATCTG;
CTCTATGCGCTGCTCGG;
GCTCTCCGAGCAGCGCA;
TCAAAGTTCCAGAGATG;
TCAGCTTTGGGATGGAG;
TTCTCCATCCCAAAGCT
7 : 12 0.0002 AT4G27930.1 | Symbols: | unknown protein | chr4:13902641-13902984 REVERSE 0 0
#2171 AAGCTTGATCTTTGTGT;
AATTCTGTTATGATCTG;
CTCTATGCGCTGCTCGG;
GCTCTCCGAGCAGCGCA;
TCAAAGTTCCAGAGATG;
TCAGCTTTGGGATGGAG;
TTCTCCATCCCAAAGCT
7 : 12 0.0002 AT4G27930.1 | Symbols: | unknown protein | chr4:13902641-13902984 REVERSE 0 0
#1217 GATGGTAGTTCAAGTAT;
TATGGGATTAAAGACCT;
TGTTGATCGGATGGTAG;
TGTTTACTAAAACAAAG;
TTCTACCATCCGATCAA;
TTGTTGATCGGATGGTA
5 : 3 0.0002 AT2G39681.1 | Symbols: TAS2 | TAS2; other RNA | chr2:16546462-16547495 REVERSE 1 11
#2160 AATACCGGAACTCTTGG;
AATTCTGTTATGATCTG;
ATCTAAGCTTGATCTTT;
CCGGCCAAGAGTTCCGG;
CTCTATGCGCTGCTCGG;
TCAGCTTTGGGATGGAG;
TTCTCCATCCCAAAGCT
7 : 13 0.0002 AT4G27930.1 | Symbols: | unknown protein | chr4:13902641-13902984 REVERSE 0 0
#1210 ATGTGTTCAAGTAAATG;
GTAACTGTATTAGCAAC;
TAAGTAACTGTATTAGC;
TATTCCAGGATATGCAA;
TCCAATGTCTTTTCTAG;
TTCAAGTCGTCTAAAGA;
TTCTAAGTTCAACATAT;
TTTCAAGTCGTCTAAAG
6 : 8 0.0003 AT2G39675.1 | Symbols: TAS1C | TAS1C; other RNA | chr2:16544366-16545355 REVERSE 1 10
#237 AAGTTTTCGGCGTAAGA;
GAGATGCTTGCCGCACA;
GCTTGCTACTTGGTGAG;
TCTTCAGATCCATGCAG;
TGGATGACTATGGTGTT;
TTTCGGCGTAAGACCTT
5 : 4 0.0004 AT1G49260.1 | Symbols: | similar to mechanosensitive ion channel domain-containing protein / MS ion channel domain-containing protein [Arabidopsis thaliana] (TAIR:AT3G14810.1); similar to MscS Mechanosensitive ion channel [Medicago truncatula] (GB:ABE89426.1) | chr1:18229538-18230635 FORWARD 0 3
#233 AAGTTTTCGGCGTAAGA;
GAGATGCTTGCCGCACA;
GCTTGCTACTTGGTGAG;
TCTTCAGATCCATGCAG;
TGGATGACTATGGTGTT
5 : 5 0.0008 AT1G49260.1 | Symbols: | similar to mechanosensitive ion channel domain-containing protein / MS ion channel domain-containing protein [Arabidopsis thaliana] (TAIR:AT3G14810.1); similar to MscS Mechanosensitive ion channel [Medicago truncatula] (GB:ABE89426.1) | chr1:18229538-18230635 FORWARD 2 3
#1203 ATGTGTTCAAGTAAATG;
GTAACTGTATTAGCAAC;
TAAGTAACTGTATTAGC;
TATTCCAGGATATGCAA;
TCCAATGTCTTTTCTAG;
TTCAAGTCGTCTAAAGA;
TTTCAAGTCGTCTAAAG
5 : 6 0.0012 AT2G39675.1 | Symbols: TAS1C | TAS1C; other RNA | chr2:16544366-16545355 REVERSE 2 10
#1090 GATGCCCTTAGATGTTC;
GGGCGGTGTGTACAAAG;
GTAAGCGCGAGTCATCA;
TGATGACTCGCGCTTAC;
TTTGAAATTTCATCGTG
5 : 6 0.0012 AT2G01010.1 | Symbols: | rRNA | chr2:3706-5513 FORWARD 0 1
#1551 GATGCCCTTAGATGTTC;
GGGCGGTGTGTACAAAG;
GTAAGCGCGAGTCATCA;
TGATGACTCGCGCTTAC;
TTTGAAATTTCATCGTG
5 : 6 0.0012 AT3G41768.1 | Symbols: | rRNA | chr3:14208663-14210470 FORWARD 0 1
#1236 TCCAATGCTTTTTCTAG;
TGATTGGATCTTAGGAA;
TTCTAAGTCCAACATAG;
TTTTAAGTCTAACATAG
4 : 2 0.0014 AT2G27400.1 | Symbols: TAS1A | TAS1A; other RNA | chr2:11728617-11729546 REVERSE 1 9
#1631 AAAAAGTTCCCCTATGA;
AGAGAACTTATTGGCCT;
GAGAACTTATTGGCCTT;
GTCTTTCCACTAAGCAG;
TCTGCTTAGTGGAAAGA;
TGTAGACGTTGACAATT;
TTCCTTATTTTGTTCCT
6 : 13 0.0017 AT3G06435.1 | Symbols: | unknown protein | chr3:1969127-1970790 REVERSE 0 1
#1645 CAACGTTTACTATGCTG;
CGTTGTTTACCGTAATG;
GAATGCTTCTGATTCAT;
TAAGGAATGCTTCTGAT;
TGAATCAGAAGCATTCC;
TGGCCTTTTGCATGTAA;
TTGAGGTCCCTACTGAA
6 : 13 0.0017 AT3G06435.1 | Symbols: | unknown protein | chr3:1969127-1970790 REVERSE 0 1
#1646 CATCTACCACATTCATC;
CTTACAATCTCAAGATG;
TAGAAATTTAGGATACA;
TAGTAAACGTTGGATAT;
TATCCAACGTTTACTAT;
TTACAATCTCAAGATGG
5 : 8 0.0027 AT3G06435.1 | Symbols: | unknown protein | chr3:1969127-1970790 REVERSE 0 1
#1225 TATGGGATTAAAGACCT;
TGTTGATCGGATGGTAG;
TGTTTACTAAAACAAAG;
TTCTACCATCCGATCAA;
TTGTTGATCGGATGGTA
4 : 3 0.0027 AT2G39681.1 | Symbols: TAS2 | TAS2; other RNA | chr2:16546462-16547495 REVERSE 0 11
#238 GCTTGCTACTTGGTGAG;
TCTTCAGATCCATGCAG;
TGGAGATTATCAGAACC;
TGGATGACTATGGTGTT
4 : 3 0.0027 AT1G49260.1 | Symbols: | similar to mechanosensitive ion channel domain-containing protein / MS ion channel domain-containing protein [Arabidopsis thaliana] (TAIR:AT3G14810.1); similar to MscS Mechanosensitive ion channel [Medicago truncatula] (GB:ABE89426.1) | chr1:18229538-18230635 FORWARD 0 3
#1358 ATCTCTTTCTAAACGTT;
TGACTCGAACGAATTAG;
TTCTTGACCTTGTAAGA;
TTCTTGACCTTGTAAGG;
TTTCTTGACCTTGTAAG;
TTTTCTTGACCTTGTAA
4 : 3 0.0027 AT3G17185.1 | Symbols: TAS3, TASIR-ARF | TAS3/TASIR-ARF (TRANS-ACTING SIRNA3); other RNA | chr3:5861497-5862443 FORWARD 0 3
#1361 ATCTCTTTCTAAACGTT;
TGACTCGAACGAATTAG;
TTCTTGACCTTGTAAGA;
TTCTTGACCTTGTAAGG;
TTTCTTGACCTTGTAAG;
TTTCTTGACCTTGTAAG;
TTTTCTTGACCTTGTAA
4 : 3 0.0027 AT3G17185.1 | Symbols: TAS3, TASIR-ARF | TAS3/TASIR-ARF (TRANS-ACTING SIRNA3); other RNA | chr3:5861497-5862443 FORWARD 0 3
#1857 ATCTCTTTCTAAACGTT;
TGACTCGAACGAATTAG;
TTCTTGACCTTGTAAGA;
TTCTTGACCTTGTAAGG;
TTTCTTGACCTTGTAAG;
TTTTCTTGACCTTGTAA
4 : 3 0.0027 AT3G17185.2 | Symbols: TAS3, TASIR-ARF | TAS3/TASIR-ARF (TRANS-ACTING SIRNA3); other RNA | chr3:5861497-5862443 FORWARD 0 3
#1860 ATCTCTTTCTAAACGTT;
TGACTCGAACGAATTAG;
TTCTTGACCTTGTAAGA;
TTCTTGACCTTGTAAGG;
TTTCTTGACCTTGTAAG;
TTTCTTGACCTTGTAAG;
TTTTCTTGACCTTGTAA
4 : 3 0.0027 AT3G17185.2 | Symbols: TAS3, TASIR-ARF | TAS3/TASIR-ARF (TRANS-ACTING SIRNA3); other RNA | chr3:5861497-5862443 FORWARD 0 3
#1653 GAACTTATTGGCCTTTT;
GAGAACTTATTGGCCTT;
GTCTTTCCACTAAGCAG;
TCACCTGTGCAAATATT;
TCTGCTTAGTGGAAAGA;
TCTTTCCACTAAGCAGA
4 : 3 0.0027 AT3G06435.1 | Symbols: | unknown protein | chr3:1969127-1970790 REVERSE 0 1
#919 ATGACATTCTCGTGCTT;
GACTTTCTTGTTCTACA;
GAGTCTCTCCCCTGCGA;
TTGGCTGAAGCCTTGGC
4 : 3 0.0027 AT2G06555.1 | Symbols: | similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G52547.2) | chr2:2604192-2604829 REVERSE 0 0
  Prev Page     Next Page     Page No. 1 / Total 4 Pages , 101 Records



Session Summary        
Users Input
Number of small RNAs submitted by user 7674,   download original FASTA file
Number of valid small RNAs after pre-processing 7674,   download processed FASTA file and LOG file
transcript/genomic library chosen by user Arabidopsis thaliana TAIR7, cDNA, released 04/25/2007
Number of phase-initiators submitted by user 217,   download original FASTA file
Number of valid phase-initiator sequences after pre-processing 166,   download processed FASTA file and LOG file
Mapping small RNAs onto transcript/genomic sequences
Number of total hits during mapping 2904
Number of small RNAs having hits 1015
Number of transcript/genomic sequences having hits 1323
Clustering phased small RNAs
Number of all phased small RNA clusters (having at least 2 phased small RNAs) 337
Number of transcript/genomic sequences associated with the phased small RNA clusters 82
Identifying cleavage site
Number of phased small RNA clusters with valid cleavage sites directed by phase-initiators 32