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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGCTCCCTTCAGCCTGATCTCAAAGAATTTGCTCAAAAATGTGTCGACGCTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtctttctttccccttctcccttaatttgttgaattattctgaaatcatataacaaactgcggcttctataaactacacaatcttaattttaaata...

Basic information

species Glycine max
transcript GLYMA11G06510.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G06510.1 (Glycine max), 5'ss of exon 1
lower sequence: AT5G66570.1 (Arabidopsis thaliana), 5'ss of exon 1
TTGCTCCCTTCAGCCTGATCTCAAAGAATTTGCTCAAAAATGTGTCGACGCTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtctttct---ttccccttctcccttaatttgttgaattattctgaaatcatataacaaactgcggcttctataaactacacaatcttaattttaaata
||||||| | ||| ||||  | || || ||  |    |||||   |||||||  |||||| || |||||||| |||||||||||||||||||| || || |||  | | | |    |||   ||||| ||||     |  |||| ||   ||  | |     || ||  |   |    ||  | |  || ||  || |   | 
TTGCTCCTTCCAGTCTGACTTTAAGGACTTCACCGGTAAATGCTCCGACGCTGTCAAAATCGCCGGATTCGCTCTTGCCACCTCTGCTCTCGTCGTCTCGgtaactttctttaatctccgactctcctttaaaactatagattaatcaagaaaaaaaaggagaattg-agtaacagagaagaagagtattttg-ttgtgttt-
















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|213616574|gb|DB965744.1|DB965744
EST:     CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCT                         GGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
genomic: CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtcttt ... atatattcagGGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
EST: gi|213593814|gb|DB957934.1|DB957934
EST:     CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCT                         GGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
genomic: CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtcttt ... atatattcagGGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
EST: gi|209703848|gb|BW670730.1|BW670730
EST:     CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCT                         GGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
genomic: CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtcttt ... atatattcagGGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
EST: gi|193418025|gb|FK382611.1|FK382611
EST:     ATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCT                         GGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
genomic: ATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtcttt ... atatattcagGGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
EST: gi|10235162|gb|BE804050.1|BE804050
EST:     GCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCT                         GGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
genomic: GCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtcttt ... atatattcagGGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
EST: gi|209721894|gb|BW680053.1|BW680053
EST:     CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCT                         GGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
genomic: CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtcttt ... atatattcagGGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
EST: gi|213617051|gb|DB961531.1|DB961531
EST:     CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCT                         GGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
genomic: CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtcttt ... atatattcagGGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
EST: gi|5753552|gb|AI960839.1|AI960839
EST:     CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCT                         GGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
genomic: CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtcttt ... atatattcagGGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
EST: gi|209706530|gb|BW676091.1|BW676091
EST:     CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCT                         GGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
genomic: CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtcttt ... atatattcagGGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
EST: gi|23056533|gb|BU577741.1|BU577741
EST:     CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCT                         GGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
genomic: CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtcttt ... atatattcagGGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
EST: gi|209696564|gb|BW672849.1|BW672849
EST:     CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCT                         GGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
genomic: CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtcttt ... atatattcagGGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
EST: gi|151395651|gb|EV265528.1|EV265528
EST:     CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCT                         GGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
genomic: CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtcttt ... atatattcagGGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
EST: gi|20207848|gb|BQ133937.1|BQ133937
EST:     CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCT                         GGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
genomic: CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtcttt ... atatattcagGGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
EST: gi|298163479|gb|HO012212.1|HO012212
EST:     CTACCGAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCT                         GGAGCAAGTGCAGAATGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
genomic: CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtcttt ... atatattcagGGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
EST: gi|298165353|gb|HO011402.1|HO011402
EST:     CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCT                         GGAGCAAGTGCAGAAAGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
genomic: CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtcttt ... atatattcagGGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
EST: gi|213605900|gb|DB968638.1|DB968638
EST:     CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCT                         GGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
genomic: CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtcttt ... atatattcagGGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
EST: gi|192330358|gb|FK021159.1|FK021159
EST:     CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCT                         GGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
genomic: CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtcttt ... atatattcagGGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
EST: gi|213606641|gb|DB972548.1|DB972548
EST:     CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCT                         GGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
genomic: CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtcttt ... atatattcagGGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
EST: gi|209723850|gb|BW675223.1|BW675223
EST:     CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCT                         GGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
genomic: CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtcttt ... atatattcagGGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
EST: gi|213598447|gb|DB958115.1|DB958115
EST:     CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCT                         GGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
genomic: CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtcttt ... atatattcagGGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
EST: gi|209727461|gb|BW651956.1|BW651956
EST:     CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCT                         GGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
genomic: CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtcttt ... atatattcagGGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
EST: gi|213596417|gb|DB962033.1|DB962033
EST:     CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCT                         GGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
genomic: CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtcttt ... atatattcagGGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
EST: gi|208147309|gb|GD944962.1|GD944962
EST:     CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCT                         GGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
genomic: CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtcttt ... atatattcagGGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
EST: gi|209721367|gb|BW654561.1|BW654561
EST:     CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCT                         GGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
genomic: CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtcttt ... atatattcagGGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
EST: gi|17400753|gb|BM177535.1|BM177535
EST:     CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCT                         GGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
genomic: CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtcttt ... atatattcagGGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
EST: gi|151398822|gb|EV268693.1|EV268693
EST:     CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCT                         GGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
genomic: CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtcttt ... atatattcagGGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
EST: gi|192309719|gb|FK002915.1|FK002915
EST:     CTACCAAAATTGCAGGATTCGCCCTTGTCACCTCTGCTCTCGTTGTTTCT                         GGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
genomic: CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtcttt ... atatattcagGGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
EST: gi|213594401|gb|DB967985.1|DB967985
EST:     CTACCAAAATTGCAGGATTCGCCCTTGCCACCCCTGCTCTCGTTGTTTCT                         GGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
genomic: CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtcttt ... atatattcagGGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
EST: gi|209712797|gb|BW681653.1|BW681653
EST:     CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCT                         GGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
genomic: CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtcttt ... atatattcagGGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
EST: gi|18692889|gb|BM521737.1|BM521737
EST:     CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCT                         GGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
genomic: CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtcttt ... atatattcagGGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
EST: gi|298191444|gb|HO038923.1|HO038923
EST:     CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCT                         GGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
genomic: CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtcttt ... atatattcagGGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
EST: gi|208332468|gb|GE128677.1|GE128677
EST:     CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCT                         GGAGCAAGTGCA
genomic: CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtcttt ... atatattcagGGAGCAAGTGCA
EST: gi|13480469|gb|BG509812.1|BG509812
EST:     CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCT                         GGAGCAAGTGCAGAAGGGGTTCCAAAAAGGCTAACCTTCGACGAAAACCAG
genomic: CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtcttt ... atatattcagGGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
EST: gi|209701457|gb|BW660932.1|BW660932
EST:     CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCT                         GGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
genomic: CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtcttt ... atatattcagGGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
EST: gi|192302258|gb|FG995854.1|FG995854
EST:     CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCT                         GGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG
genomic: CTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtcttt ... atatattcagGGAGCAAGTGCAGAAGGTGTTCCAAAAAGGCTAACCTTCGACGAAATCCAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGCTCCCTTCAGCCTGATCTCAAAGAATTTGCTCAAAAATGTGTCGACGCTACCAAAATTGCAGGATTCGCCCTTGCCACCTCTGCTCTCGTTGTTTCTgtatgtctttctttccccttctcccttaatttgttgaattattctgaaatcatataacaaactgcggcttctataaactacacaatcttaattttaaata

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tttcccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttctccc