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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatgctgatgtggaaataaagagaacttatgatttgcatagtttaactttccttggttgattcttttactcaagaagtttaaatatttttgtggtttcagAAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGATGGTCTTTGGAAG

Basic information

species Glycine max
transcript GLYMA06G13720.1
intron # 6
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|6848993|gb|AW351283.1|AW351283
EST:     AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACAT                         AAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
genomic: AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACATgtaagaaact ... gtggtttcagAAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
EST: gi|193362779|gb|FK327871.1|FK327871
EST:     AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACAT                         AAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATACTACAAA
genomic: AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACATgtaagaaact ... gtggtttcagAAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTAT-CT-CAA-
EST: gi|208150772|gb|GD944657.1|GD944657
EST:     AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACAT                         AAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
genomic: AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACATgtaagaaact ... gtggtttcagAAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
EST: gi|298187707|gb|HO031664.1|HO031664
EST:     AAACAGCATGCTCTTGCGATTGGCTTTACAAAAATGTCTGCAAAAGACGT                         GAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
genomic: AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACATgtaagaaact ... gtggtttcagAAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
EST: gi|193384075|gb|FK349674.1|FK349674
EST:     AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACAT                         AAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
genomic: AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACATgtaagaaact ... gtggtttcagAAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
EST: gi|37997132|gb|CF808721.1|CF808721
EST:     AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACAT                         AAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
genomic: AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACATgtaagaaact ... gtggtttcagAAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
EST: gi|37993894|gb|CF805640.1|CF805640
EST:     AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACAT                         AAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
genomic: AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACATgtaagaaact ... gtggtttcagAAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
EST: gi|209712615|gb|BW653748.1|BW653748
EST:     AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACAT                         AAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
genomic: AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACATgtaagaaact ... gtggtttcagAAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
EST: gi|298164604|gb|HO014249.1|HO014249
EST:     AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACAT                         AAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
genomic: AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACATgtaagaaact ... gtggtttcagAAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
EST: gi|298192440|gb|HO036522.1|HO036522
EST:     AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACAT                         AAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTAT
genomic: AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACATgtaagaaact ... gtggtttcagAAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTAT
EST: gi|151394068|gb|EV263939.1|EV263939
EST:     AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACAT                         AAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
genomic: AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACATgtaagaaact ... gtggtttcagAAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
EST: gi|193448013|gb|FK411016.1|FK411016
EST:     AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACAT                         AAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
genomic: AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACATgtaagaaact ... gtggtttcagAAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
EST: gi|208165990|gb|GD959946.1|GD959946
EST:     AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACAT                         AAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
genomic: AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACATgtaagaaact ... gtggtttcagAAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
EST: gi|209712614|gb|BW653747.1|BW653747
EST:     AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACAT                         AAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
genomic: AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACATgtaagaaact ... gtggtttcagAAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
EST: gi|193346957|gb|FK311366.1|FK311366
EST:     AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGC-AAAGACAT                         AAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
genomic: AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACATgtaagaaact ... gtggtttcagAAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
EST: gi|193303283|gb|FK272505.1|FK272505
EST:     AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACAT                         AAAAGCAATCAATAAGG
genomic: AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACATgtaagaaact ... gtggtttcagAAAAGCAATCAATAAGG
EST: gi|208158840|gb|GD958257.1|GD958257
EST:     AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACAT                         AAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
genomic: AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACATgtaagaaact ... gtggtttcagAAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
EST: gi|207769164|gb|GD741520.1|GD741520
EST:     AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACAT                         AAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGT
genomic: AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACATgtaagaaact ... gtggtttcagAAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
EST: gi|254323561|gb|GR836007.1|GR836007
EST:     AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACAT                         AAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
genomic: AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACATgtaagaaact ... gtggtttcagAAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
EST: gi|151412868|gb|EV282680.1|EV282680
EST:     AAACAACATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACAT                         AAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
genomic: AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACATgtaagaaact ... gtggtttcagAAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
EST: gi|192300163|gb|FG989285.1|FG989285
EST:     AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACAT                         AAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
genomic: AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACATgtaagaaact ... gtggtttcagAAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
EST: gi|13563320|gb|BG551540.1|BG551540
EST:     GCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACAT                         AAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
genomic: GCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACATgtaagaaact ... gtggtttcagAAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
EST: gi|254323562|gb|GR836008.1|GR836008
EST:     AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACAT                         AAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA
genomic: AAACAGCATGCTCTTGCTATTGGCTTTACAAAAATGTCTGCAAAAGACATgtaagaaact ... gtggtttcagAAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actttccttggttgattcttttactcaagaagtttaaatatttttgtggtttcagAAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGATGGTCTTTGGAAG
                                        tttttgt  CT-rich tract
                  ttttactcaagaagtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aatgctgatgtggaaataaagagaacttatgatttgcatagtttaactttccttggttgattcttttactcaagaagtttaaatatttttgtggtttcagAAAAGCAATCAATAAGGGAATTGGGGTTGATAACTTGCATTATCTCAATGATGGTCTTTGGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- tgctgat
- - - - - - -aaataaa
- - - - - - - - - - - - - - -tgatttg
- - - - - - - - - - - - - - - - - - - - - - - - ttccttg