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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTACTTGGTGGAATGAGAGGAATGACAGCTTTAGTATGGCTAGGCTCAGCTGTTGACCCGGATGAGgtatataaattaactcagtcttcacttttcagatatttgtgaactatcaaagtgaattaactcttgcttatgactatttttattaattgagagaatctctgatgtagcatctgttaatgtttactgattagttattactggatagatctctgagatcagcatgttatgtcttatag

Basic information

species Glycine max
transcript GLYMA15G42300.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G42300.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv13s0156g00180.t01 (Vitis vinifera), 5'ss of exon 6
GTACTTGGTGGAATGAGAGGAATGACAGCTTTAGTATGGCTAGGCTCAGCTGTTGACCCGGATGAGgtatataaattaactcagtcttcacttttcagatatttgtgaactatcaaagtgaattaactcttgcttatgactatttttattaattgagagaatctctgatgtagcatctgttaatgtttactgattagttattactggatagatctctgagatcagcatgttatgtcttatag
||||||||||||||||||||||||||||  ||  | |||  |  |||     ||||||| ||||| ||| |||              || ||||| |   |||  ||||   |     || |||  || ||   | | | | |  | | |  ||||   |   |  ||  |       |   || |||| |  ||  |   |     ||  |  ||||| |   | |  || ||| ||  ||
GTACTTGGTGGAATGAGAGGAATGACAGGGTTGCTGTGGGAAACCTCGTTGCTTGACCCAGATGAAgtaaata--------------tcccttttaacccattcttgaaactttgttatggatt--cttttatattttattttaatgactgtttgatgaatgttgggacatgagg---gaagatttttatttttttttgggtttccaatttagttctgaaagttg-agcttctgtttttcag
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|151408594|gb|EV278402.1|EV278402
EST:     GAGGAATGACAGCTTTAGTATGGCTAGGCTCAGCTGTTGACCCGGATGAG                         GGAATTCGCTTTAGGGGCATGTCAATTCCTGAATGCCAGAAAAAGCTTCCA
genomic: GAGGAATGACAGCTTTAGTATGGCTAGGCTCAGCTGTTGACCCGGATGAGgtatataaat ... tgtcttatagGGAATTCGCTTTAGGGGCATGTCAATTCCTGAATGCCAGAAAAAGCTTCCA
EST: gi|192324396|gb|FK015747.1|FK015747
EST:     GAGGAATGACAGCTTTAGTATGGCTAGGCTCAGCTGTTGACCCGGATGAG                         GGAATTCGCTTTAGGGGCATGTCAATTCCTGAATGCCAGAAAAAGCTTCCA
genomic: GAGGAATGACAGCTTTAGTATGGCTAGGCTCAGCTGTTGACCCGGATGAGgtatataaat ... tgtcttatagGGAATTCGCTTTAGGGGCATGTCAATTCCTGAATGCCAGAAAAAGCTTCCA
EST: gi|254317135|gb|GR826080.1|GR826080
EST:     GAGGAATGACAGCTTTAGTATGGCTAGGCTCAGCTGTTGACCCGGATGAG                         GGAATTCGCTTTAGGGGCATGTCAATTCCTGAATGCCAGAAAAAGCTTCCA
genomic: GAGGAATGACAGCTTTAGTATGGCTAGGCTCAGCTGTTGACCCGGATGAGgtatataaat ... tgtcttatagGGAATTCGCTTTAGGGGCATGTCAATTCCTGAATGCCAGAAAAAGCTTCCA
EST: gi|19052548|gb|BM731215.1|BM731215
EST:     GAGGAATGACAGCTTTAGTATGGCTAGGCTCAGCTGTTGACCCGGATGAG                         GGAATTCGCTTTAGGGGCATGTCAATTCCTGAATGCCAGAAAAAGCTTCCA
genomic: GAGGAATGACAGCTTTAGTATGGCTAGGCTCAGCTGTTGACCCGGATGAGgtatataaat ... tgtcttatagGGAATTCGCTTTAGGGGCATGTCAATTCCTGAATGCCAGAAAAAGCTTCCA
EST: gi|213591664|gb|DB969764.1|DB969764
EST:     GAGGAATGACAGCTTTAGTATGGCTAGGCTCAGCTGTTGACCCGGATGAG                         GGAATTCGCTTTAGGGGCATGTCAATTCCTGAATGCCAGAAAAAGCTTCCA
genomic: GAGGAATGACAGCTTTAGTATGGCTAGGCTCAGCTGTTGACCCGGATGAGgtatataaat ... tgtcttatagGGAATTCGCTTTAGGGGCATGTCAATTCCTGAATGCCAGAAAAAGCTTCCA
EST: gi|213588618|gb|DB957654.1|DB957654
EST:     GAGGAATGACAGCTTTAGTATGGCTAGGCTCAGCTGTTGACCCGGATGAG                         GGAATTCGCTTTAGGGGCATGTCAATTCCTGAATGCCAGAAAAAGCTTCCA
genomic: GAGGAATGACAGCTTTAGTATGGCTAGGCTCAGCTGTTGACCCGGATGAGgtatataaat ... tgtcttatagGGAATTCGCTTTAGGGGCATGTCAATTCCTGAATGCCAGAAAAAGCTTCCA
EST: gi|213604537|gb|DB970657.1|DB970657
EST:     GAGGAATGACAGCTTTAGTATGGCTAGGCTCAGCTGTTGACCCGGATGAG                         GGAATTCGCTTTAGGGGCATGTCAATTCCTGAATGCCAGAAAAAGCTTCCA
genomic: GAGGAATGACAGCTTTAGTATGGCTAGGCTCAGCTGTTGACCCGGATGAGgtatataaat ... tgtcttatagGGAATTCGCTTTAGGGGCATGTCAATTCCTGAATGCCAGAAAAAGCTTCCA
EST: gi|151410306|gb|EV280121.1|EV280121
EST:     GAGGAATGACAGCTTTAGTATGGCTAGGCTCAGCTGTTGACCCGGATGAG                         GGAATTCGCTTTAGGGGCATGTCAATTCCTGAATGCCAGAAAAAGCTTCCA
genomic: GAGGAATGACAGCTTTAGTATGGCTAGGCTCAGCTGTTGACCCGGATGAGgtatataaat ... tgtcttatagGGAATTCGCTTTAGGGGCATGTCAATTCCTGAATGCCAGAAAAAGCTTCCA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTACTTGGTGGAATGAGAGGAATGACAGCTTTAGTATGGCTAGGCTCAGCTGTTGACCCGGATGAGgtatataaattaactcagtcttcacttttcagatatttgtgaactatcaaagtgaattaactcttgcttatgactatttttattaattgagagaatctctgatgtagcatctgttaatgtttactgattagttattactggatagatctctgagatcagcatgttatgtcttatag

- - - - - - - - - - - - - - - - - - - - - -  TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - GCTGTT