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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaatgattggagtcctgcaccagttttatggcagttcatgttattttaaagaatgcacattaactgtttattttcttgatttctgttagAGTGACAGAGGAAAAACCAGGATGGTGTTCTGACCCTCATTTGCCTCCTTGTGCAGC

Basic information

species Glycine max
transcript GLYMA18G01710.1
intron # 9
splice site 3'
intron type U2

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|15661819|gb|BI699190.1|BI699190
EST:     GGGTTGACATGGCAAATGACAAAAAGAAGAGGTGATCAGGAAGTTCACAA                         AGTGACAGAGGAAAAACCAGGATGGTGTTCTGACCCTCATTTGCCTCCTTG
genomic: GGGTTGACATGGCAAATGACAAAAAGAAGAGGTGATCAGGAAGTTCACAAgtaagaatga ... tttctgttagAGTGACAGAGGAAAAACCAGGATGGTGTTCTGACCCTCATTTGCCTCCTTG
EST: gi|192319061|gb|FK010625.1|FK010625
EST:     GGGTTGACATGGCAAATGACAAAAAGAAGAGGTGATCAGGAAGTTCACAA                         AGTGACAGAGGAAAAACCAGGATGGTGTTCTGACCCTCATTTGCCTCCTTG
genomic: GGGTTGACATGGCAAATGACAAAAAGAAGAGGTGATCAGGAAGTTCACAAgtaagaatga ... tttctgttagAGTGACAGAGGAAAAACCAGGATGGTGTTCTGACCCTCATTTGCCTCCTTG
EST: gi|193670535|gb|FK609045.1|FK609045
EST:     GGGTTGACATGGCAAATGACAAAAAGAAGAGGTGATCAGGAAGTTCACAA                         AGTGACAGAGGAAAAAACCAAGGATGGTGTTCTGACCCTCATTTGCCTCCT
genomic: GGGTTGACATGGCAAATGACAAAAAGAAGAGGTGATCAGGAAGTTCACAAgtaagaatga ... tttctgttagAGTGACAGAGG-AAAAACC-AGGATGGTGTTCTGACCCTCATTTGCCTCCT
EST: gi|193622076|gb|FK568122.1|FK568122
EST:     GGGTTGACATGGCAAATGACAAAAAGAAGAGGTGATCAGGAAGTTCACAA                         AGTGACAGAGGAAAAACCAGGATGGTGTTCTGACCCTCATTTGCCTCCTTG
genomic: GGGTTGACATGGCAAATGACAAAAAGAAGAGGTGATCAGGAAGTTCACAAgtaagaatga ... tttctgttagAGTGACAGAGGAAAAACCAGGATGGTGTTCTGACCCTCATTTGCCTCCTTG
EST: gi|254347136|gb|GR856806.1|GR856806
EST:     AGGAAGTTCACAA                         AGTGACAGAGGAAAAACCAGGATGGTGTTCTGACCCTCATTTGCCTCCTTG
genomic: AGGAAGTTCACAAgtaagaatga ... tttctgttagAGTGACAGAGGAAAAACCAGGATGGTGTTCTGACCCTCATTTGCCTCCTTG
EST: gi|208265459|gb|GE062651.1|GE062651
EST:     AAATGACAAAAAGAAGAGGTGATCAGGAAGTTCACAA                         AGTGACAGAGGAAAAACCAGGATGGTGTTCTGACCCTCATTTGCCTCCTTG
genomic: AAATGACAAAAAGAAGAGGTGATCAGGAAGTTCACAAgtaagaatga ... tttctgttagAGTGACAGAGGAAAAACCAGGATGGTGTTCTGACCCTCATTTGCCTCCTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcatgttattttaaagaatgcacattaactgtttattttcttgatttctgttagAGTGACAGAGGAAAAACCAGGATGGTGTTCTGACCCTCATTTGCCTCCTTGTGCAGC
                                    ttttcttgatttct  CT-rich tract
                        attaactgtttatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagaatgattggagtcctgcaccagttttatggcagttcatgttattttaaagaatgcacattaactgtttattttcttgatttctgttagAGTGACAGAGGAAAAACCAGGATGGTGTTCTGACCCTCATTTGCCTCCTTGTGCAGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG