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



[   GIBBS   ][   5'-flanking Region (Intronic)   ][   Motif #2   ]

Motif Logos

Motif Energy Dot Plot (25 + 11 + 25)

Motif Secondary Structure ( 25 + 11 + 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  41649887 41649897 -1
2 ENSG00000012048  17  41649973 41649983 -1
3 ENSG00000012048  17  41650031 41650041 -1
4 ENSG00000012048  17  41650101 41650111 -1
5 ENSG00000012048  17  41650256 41650266 -1
6 ENSG00000012048  17  41650323 41650333 -1
7 ENSG00000012048  17  41649887 41649897 -1
8 ENSG00000012048  17  41649973 41649983 -1
9 ENSG00000012048  17  41650031 41650041 -1
10 ENSG00000012048  17  41650101 41650111 -1
11 ENSG00000012048  17  41650256 41650266 -1
12 ENSG00000012048  17  41650323 41650333 -1
13 ENSG00000012048  17  41629572 41629582 -1
14 ENSG00000012048  17  41624762 41624772 -1
15 ENSG00000012048  17  41624929 41624939 -1

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

Motif PSSM
Position A C G T
1 69 0 0 0
2 0 0 57 0
3 0 0 69 0
4 0 0 75 0
6 0 0 93 0
7 57 0 39 0
8 39 32 0 0
9 93 0 0 0
10 0 93 0 0
11 0 26 0 69

Motif FASTA
1 acggggggta GGGGCGGAACC tgagaggcgt
2 gaggatcagg AAGGGGGCACT gagtgtccgt
3 atatgccttg AGGGGGACACT atgtctttaa
4 cctgaccaac GTGGTGAAACT ccgtctctac
5 cctgggcgac AGAGCGAGACT gtctcaaaac
6 tatgtatgag AGGATGGGACC ttgtggaaga
7 acggggggta GGGGCGGAACC tgagaggcgt
8 gaggatcagg AAGGGGGCACT gagtgtccgt
9 atatgccttg AGGGGGACACT atgtctttaa
10 cctgaccaac GTGGTGAAACT ccgtctctac
11 cctgggcgac AGAGCGAGACT gtctcaaaac
12 tatgtatgag AGGATGGGACC ttgtggaaga
13 gaatatccca AGAATGACACT caagtgctgt
14 cctagccaac ATGGAGAAACT ctgtctgtac
15 ctgggcaaaa ATAGCGAAACT ccatctaaaa


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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