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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tggggtttaattaatatacatcttagaatttctaagtcacaataaagcttcagtggtggttataatcttttgttggtttctggtcatttattgcttgcagCACTTCAATTGTCAATAACAGATAGTGCAAAGGATCAATCAAGCCAGTCAGACATGAGCAAATTGTTAGCTGATCAATCCTTTGTATCTTCTATCCTTGC

Basic information

species Glycine max
transcript GLYMA11G08290.1
intron # 7
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|58019852|gb|CX706594.1|CX706594
EST:     AGATACAGATATGTCTGAAGCATCTGCAAGTGATCCTGACTTGGCTCTGG                         CACTTCAATTGTCAATAACAGATAGTGCAAAGGATCAATCAAGCCAGTCAG
genomic: AGATACAGATATGTCTGAAGCATCTGCAAGTGATCCTGACTTGGCTCTGGgtgagttttt ... ttgcttgcagCACTTCAATTGTCAATAACAGATAGTGCAAAGGATCAATCAAGCCAGTCAG
EST: gi|58023403|gb|CX710144.1|CX710144
EST:     AGATACAGATATGTCTGAAGCATCTGCAAGTGATCCTGACTTGGCTCTGG                         CACTTCAATTGTCAATAACAGATAGTGCAAAGGATCAATCAAGCCAGTCAG
genomic: AGATACAGATATGTCTGAAGCATCTGCAAGTGATCCTGACTTGGCTCTGGgtgagttttt ... ttgcttgcagCACTTCAATTGTCAATAACAGATAGTGCAAAGGATCAATCAAGCCAGTCAG
EST: gi|193339713|gb|FK302316.1|FK302316
EST:     ATACAGATATGTCTGAAGCATCTGCAAGTGATCCTGACTTGGCTCTGG                         CACTTCAATTGTCAATAACAGATAGTGCAAAGGATCAATCAAGCCAGTCAG
genomic: ATACAGATATGTCTGAAGCATCTGCAAGTGATCCTGACTTGGCTCTGGgtgagttttt ... ttgcttgcagCACTTCAATTGTCAATAACAGATAGTGCAAAGGATCAATCAAGCCAGTCAG
EST: gi|57574672|gb|CX547647.1|CX547647
EST:     AGATACAGATATGTCTGAAGCATCTGCAAGTGATCCTGACTTGGCTCTGG                         CACTTCAATTGTCAATAACAGATAGTGCAAAGGATCAATCAAGCCAGTCAG
genomic: AGATACAGATATGTCTGAAGCATCTGCAAGTGATCCTGACTTGGCTCTGGgtgagttttt ... ttgcttgcagCACTTCAATTGTCAATAACAGATAGTGCAAAGGATCAATCAAGCCAGTCAG
EST: gi|6847457|gb|AW349818.1|AW349818
EST:     AGATACAGATATGTCTGAAGCATCTGCAAGTGATCCTGACTTGGCTCTGG                         CACTTCAATTGTCAATAACAGATAGTGCAAAGGATCAATCAAGCCAGTCAG
genomic: AGATACAGATATGTCTGAAGCATCTGCAAGTGATCCTGACTTGGCTCTGGgtgagttttt ... ttgcttgcagCACTTCAATTGTCAATAACAGATAGTGCAAAGGATCAATCAAGCCAGTCAG
EST: gi|254318747|gb|GR830311.1|GR830311
EST:     AGATACAGATATGTCTGAAGCATCTGCAAGTGATCCTGACTTGGCTCTGG                         CACTTCAATTGTCAATAACAGATAGTGCAAAGGATCAATCAAGCCAGTCAG
genomic: AGATACAGATATGTCTGAAGCATCTGCAAGTGATCCTGACTTGGCTCTGGgtgagttttt ... ttgcttgcagCACTTCAATTGTCAATAACAGATAGTGCAAAGGATCAATCAAGCCAGTCAG
EST: gi|213602700|gb|DB978115.1|DB978115
EST:     AGATACAGATATGGGTGAAGCATCTGCAAGTGATCCTGACTTGGCTCTGG                         CACTTCAATTGTCAATAACAGATAGTGCAAAGGATCAATCAAGCCAGTCAG
genomic: AGATACAGATATGTCTGAAGCATCTGCAAGTGATCCTGACTTGGCTCTGGgtgagttttt ... ttgcttgcagCACTTCAATTGTCAATAACAGATAGTGCAAAGGATCAATCAAGCCAGTCAG
EST: gi|213597471|gb|DB981639.1|DB981639
EST:     AGATACAGATATGACTGAAGCATCTGCAAGTGATCCTGACTTGGCTCTGG                         CACTTCAATTGTCAATAACAGATAGTGCAAAGGATCAATCAAGCCAGTCAG
genomic: AGATACAGATATGTCTGAAGCATCTGCAAGTGATCCTGACTTGGCTCTGGgtgagttttt ... ttgcttgcagCACTTCAATTGTCAATAACAGATAGTGCAAAGGATCAATCAAGCCAGTCAG
EST: gi|254318748|gb|GR830312.1|GR830312
EST:     AGATACAGATATGTCTGAAGCATCTGCAAGTGATCCTGACTTGGCTCTGG                         CACTTCAATTGTCAATAACAGATAGTGCAAAGGATCAATCAAGCCAGTCAG
genomic: AGATACAGATATGTCTGAAGCATCTGCAAGTGATCCTGACTTGGCTCTGGgtgagttttt ... ttgcttgcagCACTTCAATTGTCAATAACAGATAGTGCAAAGGATCAATCAAGCCAGTCAG
EST: gi|193562452|gb|FK518241.1|FK518241
EST:     AGATACAG--ATGTCTGAAGCATCTGCAAGTGATCCTGACTTGGCTCTGG                         CACTTCAATTGTCAATAACAGATAGTGCAAAGGATCAATCAAGCCAGTCAG
genomic: AGATACAGATATGTCTGAAGCATCTGCAAGTGATCCTGACTTGGCTCTGGgtgagttttt ... ttgcttgcagCACTTCAATTGTCAATAACAGATAGTGCAAAGGATCAATCAAGCCAGTCAG
EST: gi|151395379|gb|EV265250.1|EV265250
EST:     AGATACAGATATGTCTGAAGCATCTGCAAGTGATCCTGACTTGGCTCTGA                         CACTTCAATTGTCAATAACAGATAGTGCAAAGGATCAATCAAGCCAGTCAG
genomic: AGATACAGATATGTCTGAAGCATCTGCAAGTGATCCTGACTTGGCTCTGGgtgagttttt ... ttgcttgcagCACTTCAATTGTCAATAACAGATAGTGCAAAGGATCAATCAAGCCAGTCAG
EST: gi|6069956|gb|AW099536.1|AW099536
EST:     AGATACAGATATGTCTGAAGCATCTGCAAGTGATCCTGACTTGGCTCTGG                         CACTTCAATTGTCAATAACAGATAGTGCAAAGGATCAATCAAGCCAGTCAG
genomic: AGATACAGATATGTCTGAAGCATCTGCAAGTGATCCTGACTTGGCTCTGGgtgagttttt ... ttgcttgcagCACTTCAATTGTCAATAACAGATAGTGCAAAGGATCAATCAAGCCAGTCAG
EST: gi|27426751|gb|CA938271.1|CA938271
EST:     ATCCTGACTTGGCTCTGG                         CACTTCAATTGTCAATAACAGATAGTGCAAAGGATCAATCAAGCCAGTCAG
genomic: ATCCTGACTTGGCTCTGGgtgagttttt ... ttgcttgcagCACTTCAATTGTCAATAACAGATAGTGCAAAGGATCAATCAAGCCAGTCAG
EST: gi|209715415|gb|BW684699.1|BW684699
EST:     AGATACAGATATGTCTGAAGCATCTGCAAGTGATCCTGACTTGGCTCTGG                         CACTTCAATTGTCAATAACAGATAGTGCAAAGGATCAATCAAGCCAGTCAG
genomic: AGATACAGATATGTCTGAAGCATCTGCAAGTGATCCTGACTTGGCTCTGGgtgagttttt ... ttgcttgcagCACTTCAATTGTCAATAACAGATAGTGCAAAGGATCAATCAAGCCAGTCAG
EST: gi|37995492|gb|CF807081.1|CF807081
EST:     AGATACAGATATGTCTGAAGCATCTGCAAGTGATCCTGACTTGGCTCTGG                         CACTTCAATTGTCAATAACAGATAGTGCAAAGGATCAATCAAGCCAGTCAG
genomic: AGATACAGATATGTCTGAAGCATCTGCAAGTGATCCTGACTTGGCTCTGGgtgagttttt ... ttgcttgcagCACTTCAATTGTCAATAACAGATAGTGCAAAGGATCAATCAAGCCAGTCAG
EST: gi|193638789|gb|FK585990.1|FK585990
EST:     GCATCTGCAAGTGATCCTGACTTGGCTCTGG                         CACTTCAATTGTCAATAACAGATAGTGCAAAGGATCAATCAAGCCAGTCAG
genomic: GCATCTGCAAGTGATCCTGACTTGGCTCTGGgtgagttttt ... ttgcttgcagCACTTCAATTGTCAATAACAGATAGTGCAAAGGATCAATCAAGCCAGTCAG
EST: gi|208244218|gb|GE042515.1|GE042515
EST:     AGATACAGATATGTCTGAAGCATCTGCAAGTGATCCTGACTTGGCTCTGG                         CACTTCAATTATCAATA
genomic: AGATACAGATATGTCTGAAGCATCTGCAAGTGATCCTGACTTGGCTCTGGgtgagttttt ... ttgcttgcagCACTTCAATTGTCAATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agcttcagtggtggttataatcttttgttggtttctggtcatttattgcttgcagCACTTCAATTGTCAATAACAGATAGTGCAAAGGATCAATCAAGCCAGTCAGACATGAGCAAATTGTTAGCTGATCAATCCTTTGTATCTTCTATCCTTGC
              ttataatcttttgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tggggtttaattaatatacatcttagaatttctaagtcacaataaagcttcagtggtggttataatcttttgttggtttctggtcatttattgcttgcagCACTTCAATTGTCAATAACAGATAGTGCAAAGGATCAATCAAGCCAGTCAGACATGAGCAAATTGTTAGCTGATCAATCCTTTGTATCTTCTATCCTTGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
-ggggttt
- - - - - - - - - - - - - - - - - - - - - - - gcttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - -tggtggt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtttctg