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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tattgacttttgagcataatttagtgtagttataatctaattgtgattagctcttggaaataattgttgttttctatattcatttttttcttttgtgtagAGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGTCATTCTCTTCTTGCCTACAAAAGCACACTTCAAGGAATAGGGAAGCTTC

Basic information

species Glycine max
transcript GLYMA14G06780.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G06780.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv13s0019g03330.t01 (Vitis vinifera), 3'ss of exon 7
tattgacttt-tgagcataatttagtgtagttataatctaattgtgattagctcttggaa-ataattgttgttttctatattcatttttttcttttgtgtagAGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGTCATTCTCTTCTTGCCTACAAAAGCACACTTCAAGGAATAGGGAAGCTTC
  | ||| |  |||        | | ||   | | || |       | ||  | ||     |    |  || |    | | || ||| | |||| |  | || | ||||||||||||||||| ||  ||||||||||||||  |||  |||| |||||||||||||||||||||||  || | || || ||||  |||||||
--tggacctggtgattgaggaatggagtgcctcttattttgggaatactaatttttcttttacccattctgataaaaaaaatcttttatatcttattggcagCGTGACTTGACTGATTCAACAGTTCTAAGGAACATGGGTGAAGGATTAGGACATTCTCTTCTTGCCTACAAAAGTTCATTACAGGGTATAGCAAAGCTTC
















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|208280434|gb|GE080548.1|GE080548
EST:     ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAG                         AGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGT
genomic: ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAGgcaagacctc ... ttttgtgtagAGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGT
EST: gi|208124750|gb|GD924196.1|GD924196
EST:     ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAG                         AGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGT
genomic: ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAGgcaagacctc ... ttttgtgtagAGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGT
EST: gi|208079688|gb|GD875820.1|GD875820
EST:     ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAG                         AGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGT
genomic: ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAGgcaagacctc ... ttttgtgtagAGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGT
EST: gi|193359542|gb|FK324599.1|FK324599
EST:     ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAG                         AGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGT
genomic: ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAGgcaagacctc ... ttttgtgtagAGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGT
EST: gi|193378276|gb|FK345023.1|FK345023
EST:     ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAG                         AGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGT
genomic: ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAGgcaagacctc ... ttttgtgtagAGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGT
EST: gi|193414756|gb|FK381396.1|FK381396
EST:     ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAG                         AGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGT
genomic: ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAGgcaagacctc ... ttttgtgtagAGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGT
EST: gi|193368600|gb|FK337570.1|FK337570
EST:     ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCGCGTTGGCAG                         AGGGACTTGACTGATTCAACTGTCTTA
genomic: ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAGgcaagacctc ... ttttgtgtagAGGGACTTGACTGATTCAACTGTCTTA
EST: gi|208303520|gb|GE101265.1|GE101265
EST:     ATGGAGGTCTGTCACATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAG                         AGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTGTAGGTATAGGT
genomic: ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAGgcaagacctc ... ttttgtgtagAGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGT
EST: gi|193513684|gb|FK466458.1|FK466458
EST:     ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAG                         AGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGT
genomic: ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAGgcaagacctc ... ttttgtgtagAGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGT
EST: gi|208253117|gb|GE051567.1|GE051567
EST:     ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAG                         AGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGT
genomic: ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAGgcaagacctc ... ttttgtgtagAGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGT
EST: gi|151409195|gb|EV279003.1|EV279003
EST:     ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAG                         AGGGACTTGGCTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGT
genomic: ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAGgcaagacctc ... ttttgtgtagAGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGT
EST: gi|193394863|gb|FK359036.1|FK359036
EST:     ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAG                         AGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGT
genomic: ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAGgcaagacctc ... ttttgtgtagAGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGT
EST: gi|208100430|gb|GD898502.1|GD898502
EST:     ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAG                         AGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGT
genomic: ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAGgcaagacctc ... ttttgtgtagAGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGT
EST: gi|193386958|gb|FK351255.1|FK351255
EST:     ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAG                         AGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGT
genomic: ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAGgcaagacctc ... ttttgtgtagAGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGT
EST: gi|193433145|gb|FK395783.1|FK395783
EST:     ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAG                         AGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGT
genomic: ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAGgcaagacctc ... ttttgtgtagAGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGT
EST: gi|208311176|gb|GE103414.1|GE103414
EST:     ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAG                         AGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGT
genomic: ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAGgcaagacctc ... ttttgtgtagAGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGT
EST: gi|21285329|gb|BQ473200.1|BQ473200
EST:     ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAG                         AGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGG
genomic: ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAGgcaagacctc ... ttttgtgtagAGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGG
EST: gi|207790508|gb|GD760889.1|GD760889
EST:     ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAG                         AGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGT
genomic: ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAGgcaagacctc ... ttttgtgtagAGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGT
EST: gi|13562572|gb|BG550792.1|BG550792
EST:     ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAG                         AGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGT
genomic: ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAGgcaagacctc ... ttttgtgtagAGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGT
EST: gi|208231945|gb|GE031320.1|GE031320
EST:     ATGGAGGTCTGTCACATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAG                         AGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTGTAGGTATAGGT
genomic: ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAGgcaagacctc ... ttttgtgtagAGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGT
EST: gi|51335938|gb|CO979804.1|CO979804
EST:     ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAG                         AGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTGTAGGTATAGGT
genomic: ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAGgcaagacctc ... ttttgtgtagAGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGT
EST: gi|16276249|gb|BI941758.1|BI941758
EST:     ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATGTCACGTTGGCAG                         AAGGACTTGACTGATTCAACTGTCTTAACGAACATGAGTATAGATATA
genomic: ATGGAGGTCTGTCTCATCTAAGCATGAAGTTGCCGATTTCACGTTGGCAGgcaagacctc ... ttttgtgtagAGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attagctcttggaaataattgttgttttctatattcatttttttcttttgtgtagAGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGTCATTCTCTTCTTGCCTACAAAAGCACACTTCAAGGAATAGGGAAGCTTC
                     ttgttttctatattca  CT-rich tract
            aaataattgttgtttt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tattgacttttgagcataatttagtgtagttataatctaattgtgattagctcttggaaataattgttgttttctatattcatttttttcttttgtgtagAGGGACTTGACTGATTCAACTGTCTTAAGGAACATGGGTATAGGTATAGGTCATTCTCTTCTTGCCTACAAAAGCACACTTCAAGGAATAGGGAAGCTTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - -ggaaataa