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



[   GIBBS   ][   3'-flanking Region (Intronic)   ][   Motif #1   ]

Motif Logos

Motif Energy Dot Plot (25 + 15 + 25)

Motif Secondary Structure ( 25 + 15 + 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  41650523 41650537 -1
2 ENSG00000012048  17  41650543 41650557 -1
3 ENSG00000012048  17  41650511 41650525 -1
4 ENSG00000012048  17  41650531 41650545 -1
5 ENSG00000012048  17  41625092 41625106 -1
6 ENSG00000012048  17  41625129 41625143 -1
7 ENSG00000012048  17  41625150 41625164 -1
8 ENSG00000012048  17  41625287 41625301 -1
9 ENSG00000012048  17  41622484 41622498 -1
10 ENSG00000012048  17  41622545 41622559 -1
11 ENSG00000012048  17  41621163 41621177 -1
12 ENSG00000012048  17  41621187 41621201 -1
13 ENSG00000012048  17  41621385 41621399 -1

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

Motif PSSM
Position A C G T
1 30 0 51 0
2 0 0 72 0
3 0 51 0 0
4 0 86 0 0
5 0 0 0 94
6 0 93 0 0
11 30 0 0 59
12 0 0 79 0
13 0 0 0 87
15 0 79 0 0

Motif FASTA
1 gagagacgct TGGCTCTTTCTGTCC ctcccatcct
2 tgtccctccc ATCCTCTGATTGTAC cttgatttcg
3 gagagacgct TGGCTCTTTCTGTCC ctcccatcct
4 tgtccctccc ATCCTCTGATTGTAC cttgatttcg
5 gtagagactg GGTCTCACTCTGTTG cttatgctgg
6 ttgaactcct GGCCTCAAGCAGTCC tgctccagcc
7 gtcctgctcc AGCCTCCCAAAGTGC tgggattata
8 ttttgtccat GGTGTCAAGTTTCTC ttcaggagga
9 tagaaacggg GGTCTCACTTTGTTG gccaggctgg
10 cacccatctc GGCCTCCTCAAGTGC tgggattaca
11 ttgaactcat GACCTCAAGTGGTCC acccgcctca
12 cacccgcctc AGCCTCCCAAAGTGC tggaattaca
13 tttcttatta GGACTCTGTCTTTTC cctata


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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