An integrated system to identify conserved sequence elements
      associated to mRNA splicing



[   GIBBS   ][   User-Input FASTA   ][   Motif #1   ]

Motif Logos

Motif Energy Dot Plot (0 + 10 + 0)

Motif Secondary Structure ( 0 + 10 + 0)

Motif Statistics  
Gene ID Chromosome Strand  
Use HMM Models to Scan This Gene Set M-->Motif s-->selected region  

Motif Information
Detail ID Gene ID Chromosome Start Position End Position Strand View ProSplicer Splice View
1     37 46 0
2     14 23 0
3     29 38 0
4     42 51 0
5     109 118 0
6     89 98 0
7     39 48 0
8     33 42 0
9     51 60 0
10     75 84 0
11     47 56 0
12     18 27 0
13     61 70 0
14     99 108 0
15     56 65 0
16     2 11 0
17     1 10 0
18     1 10 0
19     36 45 0
20     59 68 0
21     23 32 0
22     71 80 0
23     149 158 0
24     76 85 0
25     67 76 0
26     53 62 0
27     59 68 0
28     56 65 0
29     12 21 0
30     63 72 0
31     18 27 0
32     94 103 0
33     2 11 0
34     17 26 0
35     74 83 0
36     184 193 0
37     227 236 0
38     246 255 0
39     380 389 0
40     137 146 0
41     18 27 0
42     5 14 0
43     25 34 0
44     10 19 0

Motif Simplified PSSM
A 0 0 0 0 0 0 0 0 0 0
C 0 6 8 0 5 7 0 9 9 0
G 4 0 0 3 0 0 0 0 0 0
T 0 3 0 3 4 0 9 0 0 5

Motif PSSM
Position A C G T
1 0 0 39 0
2 0 62 0 29
3 0 75 0 0
4 0 0 33 31
5 0 54 0 41
6 0 73 0 0
7 0 0 0 85
8 0 85 0 0
9 0 93 0 0
10 0 0 0 52

Motif FASTA
1 gggcagggag CTCGCTTCCC tgttccgggc
2 tggagccaga GCCTTCTTCA gcag
3 agttccccta ATTGCTTCCT ctaccatctg
4 ggcccccata GCTGCCTCCT cccaccctca
5 gctctcccgc CCTGCCTCCC cctgccgtgc
6 acagcttccc GCCTCCTCCA gctgcttcag
7 cgtaaagggc CTCCCCTCCC caatggtgac
8 gccagagctc ATCTTTTCCC accaactatc
9 tgctaccgcc GCCGCCTCCA gtggccagac
10 ccagacctgt GCCCCTTCCT atgcctgatt
11 gggagggaat GCCCTCTCCT tttaaag
12 atttatgctg ATCCTCTCCA ttgcaacatg
13 atattgtagc CCTTTTTCCT gttcctgaag
14 tcagtacacc ACCCCCTCCT gacctctag
15 cgatttccag TCAGTCTCCC atag
16 t GTTTTTTCCT cttcaggtga
17 GTCCTTTCCA gtctcagaaa
18 ATTTCCTCCT ctgatgctcc
19 agcctttggt ATCCTCTCCT tctctgcaag
20 ccagcccttt GCCCCCACCC ctggggtacc
21 catcgccttg CCCATCTCCT tcctctcgcc
22 caggtcccaa CTCTCTTCCA cctcgggcag
23 ccccgtctca CCCCTCTGCT catggttctc
24 ggtgcaaaaa GCCTCCTCCT gccactcctc
25 ccaaccagtg GCCTTCTCCA ggagctctgg
26 gttgcaacac CCCCTCTTCT gcaacaa
27 tatcctcgga ACCTTCTCCT gcagtcacac
28 tggcttccct GCTGCCTCCT gactttcaga
29 gctgaccagg GTCGCCTCCT ggactgcgtg
30 gcaaagctcc ACCACCTCCT atcagtccta
31 caaggaccat TCCTTCTTCC accaaaccct
32 cacacaacgt AGCTTCTCCT tccctattag
33 a ACCCCCCCCA ccagcgccag
34 cagaaaatac CCCACCCCCT cctctaggtt
35 ctccatcccc ACCGCTCCCT cccacaaggc
36 ggcgtccaga TCCGCCTCCC acccaggcgc
37 acccggggcg GCCGCCTCCC acctccgcgg
38 cacctccgcg GCCCTCTCCT tgcttccccc
39 ctgatgtgga GCCGTCTCCT ctcaacctct
40 tcccgaaagc ACCTCCTCCA aacagccctc
41 ttaaccatca CTTGTCTCCT cggctgtttt
42 tcga GTCGCTTCCC gccgagcccc
43 aatccagcct ACCGCCTCCT tctggccact
44 ggcgctttc GGCTCCTCCC agatgtacag


Department of Computer Science and Information Engineering
National Central University
No.300, Jung-Da Rd., Chung-li , Tao-yuan, Taiwan, 320, R.O.C.
Department of Biological Science and Technology, Institute of Bioinformatics
National Chiao Tung University
1001 Ta Hsueh Road, Hsinchu, Taiwan 300, ROC
Contact with bryan@mail.NCTU.edu.tw







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