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



[   GIBBS   ][   3'-flanking Region (Intronic)   ][   Motif #5   ]

Motif Logos

Motif Energy Dot Plot (25 + 19 + 25)

Motif Secondary Structure ( 25 + 19 + 25)

Motif Statistics  
Gene ID Chromosome Strand Exon
1
Intron
1
Exon
2
Intron
2
Exon
3
Intron
3
Exon
4
Intron
4
Exon
5
Intron
5
Exon
6
Intron
6
Exon
7
Intron
7
Exon
8
Intron
8
Exon
9
Intron
9
Exon
10
Intron
10
Exon
11
Intron
11
Exon
12
Intron
12
Exon
13
Intron
13
Exon
14
Intron
14
Exon
15
Intron
15
Exon
16
Intron
16
Exon
17
Intron
17
Exon
18
Intron
18
Exon
19
Intron
19
Exon
20
Intron
20
Exon
21
Intron
21
Exon
22
Intron
22
Exon
23
Intron
23
Exon
24
Intron
24
Exon
25
Intron
25
Exon
26
 
ENSG00000012048 HMM 17 -1                                                                                                                                                          0/0
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 ENSG00000012048  17  41650491 41650509 -1
2 ENSG00000012048  17  41650677 41650695 -1
3 ENSG00000012048  17  41650479 41650497 -1
4 ENSG00000012048  17  41629639 41629657 -1
5 ENSG00000012048  17  41625165 41625183 -1
6 ENSG00000012048  17  41625305 41625323 -1
7 ENSG00000012048  17  41622560 41622578 -1
8 ENSG00000012048  17  41622631 41622649 -1
9 ENSG00000012048  17  41621202 41621220 -1
10 ENSG00000012048  17  41621255 41621273 -1

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

Motif PSSM
Position A C G T
1 39 0 0 58
2 0 0 84 0
5 39 0 0 48
8 57 38 0 0
10 84 0 0 0
11 29 0 66 0
16 0 0 93 0
17 75 0 0 0
18 0 0 75 0
19 0 84 0 0

Motif FASTA
1 gggggcagac TGGGTGGCCAATCCAGAGC cccgagagac
2 gagctcgctg AGACTTCCTGGACGGGGGA caggctgtgg
3 gggggcagac TGGGTGGCCAATCCAGAGC cccgagagac
4 taatgcattg TCTTAACACAACAAAGAGC atacataggg
5 cccaaagtgc TGGGATTATAGGCATGAGC taccgctccc
6 gtttctcttc AGGAGGAAAAGCACAGAAC tggccaacaa
7 cctcaagtgc TGGGATTACAGGTGAGAGC cactgtgcct
8 attacatact AGCTTAACTAGCATTGTAC ctgccacagt
9 cccaaagtgc TGGAATTACAGGCTTGAGC caccgtgccc
10 ttcaactaga AGTTTCTAAAGGAGAGAGC agctttcact


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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