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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaataatcatcgtatctttaaccaagtgagacttattctcaaatgtgtgattaatcgtatgtgaataaagctcattttatgcttgtggggcgtatggtattgatagGTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGTCCGTGTTGCTCGCAACAACCAAGACAAAGAAGCAAAACAAGCCTGCTGC

Basic information

species Glycine max
transcript GLYMA13G42830.1
intron # 1
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|13252125|gb|BG363028.1|BG363028
EST:     CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCG                         GTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
genomic: CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCGgtaataatca ... gtattgatagGTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
EST: gi|58014630|gb|CX701372.1|CX701372
EST:     CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCG                         GTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
genomic: CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCGgtaataatca ... gtattgatagGTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
EST: gi|151412831|gb|EV282643.1|EV282643
EST:     CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCG                         GTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
genomic: CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCGgtaataatca ... gtattgatagGTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
EST: gi|192334453|gb|FK025574.1|FK025574
EST:     CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCG                         GTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
genomic: CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCGgtaataatca ... gtattgatagGTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
EST: gi|192298037|gb|FG991317.1|FG991317
EST:     CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCG                         GTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
genomic: CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCGgtaataatca ... gtattgatagGTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
EST: gi|151404253|gb|EV274063.1|EV274063
EST:     CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCG                         GTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
genomic: CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCGgtaataatca ... gtattgatagGTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
EST: gi|58023971|gb|CX710712.1|CX710712
EST:     CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCG                         GTTTGTCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
genomic: CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCGgtaataatca ... gtattgatagGTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
EST: gi|209728043|gb|BW666765.1|BW666765
EST:     CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCG                         GTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
genomic: CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCGgtaataatca ... gtattgatagGTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
EST: gi|151408919|gb|EV278727.1|EV278727
EST:     CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCG                         GTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
genomic: CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCGgtaataatca ... gtattgatagGTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
EST: gi|209700447|gb|BW664434.1|BW664434
EST:     CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCG                         GTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
genomic: CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCGgtaataatca ... gtattgatagGTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
EST: gi|193517191|gb|FK473431.1|FK473431
EST:     CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCG                         GTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
genomic: CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCGgtaataatca ... gtattgatagGTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
EST: gi|120531646|gb|EH259779.1|EH259779
EST:     ACACTTTCAAGTACTCCG                         GTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
genomic: ACACTTTCAAGTACTCCGgtaataatca ... gtattgatagGTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
EST: gi|254314518|gb|GR829511.1|GR829511
EST:     CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCG                         GTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
genomic: CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCGgtaataatca ... gtattgatagGTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
EST: gi|192313717|gb|FK008737.1|FK008737
EST:     CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCG                         GTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
genomic: CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCGgtaataatca ... gtattgatagGTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
EST: gi|254314519|gb|GR829512.1|GR829512
EST:     CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCG                         GTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
genomic: CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCGgtaataatca ... gtattgatagGTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
EST: gi|209722539|gb|BW682637.1|BW682637
EST:     CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCG                         GTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
genomic: CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCGgtaataatca ... gtattgatagGTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
EST: gi|209700448|gb|BW664435.1|BW664435
EST:     ACAACCTCAACACTTTCAAGTACTCCG                         GTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
genomic: ACAACCTCAACACTTTCAAGTACTCCGgtaataatca ... gtattgatagGTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
EST: gi|209702857|gb|BW675727.1|BW675727
EST:     CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCG                         GTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
genomic: CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCGgtaataatca ... gtattgatagGTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
EST: gi|298181112|gb|HO022551.1|HO022551
EST:     CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCG                         GTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
genomic: CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCGgtaataatca ... gtattgatagGTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
EST: gi|298168883|gb|HO009813.1|HO009813
EST:     CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCG                         GTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
genomic: CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCGgtaataatca ... gtattgatagGTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
EST: gi|192295037|gb|FG986756.1|FG986756
EST:     CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCG                         GTTTGGTGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
genomic: CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCGgtaataatca ... gtattgatagGTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
EST: gi|16280185|gb|BI943836.1|BI943836
EST:     CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCG                         GTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
genomic: CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCGgtaataatca ... gtattgatagGTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
EST: gi|192313718|gb|FK008738.1|FK008738
EST:     CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCG                         GTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
genomic: CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCGgtaataatca ... gtattgatagGTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
EST: gi|151399758|gb|EV269629.1|EV269629
EST:     GCAGAGAGCCCAACAATCTCTATAACCTCAACACTTTCAAGTACTCCG                         GTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
genomic: GCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCGgtaataatca ... gtattgatagGTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
EST: gi|151411631|gb|EV281442.1|EV281442
EST:     CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCG                         GTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT
genomic: CAGCAGAGAGCCCAACAATCTCTACAACCTCAACACTTTCAAGTACTCCGgtaataatca ... gtattgatagGTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taatcgtatgtgaataaagctcattttatgcttgtggggcgtatggtattgatagGTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGTCCGTGTTGCTCGCAACAACCAAGACAAAGAAGCAAAACAAGCCTGCTGC
 gattaat  putative branch site (score: 3)
                    tcattttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaataatcatcgtatctttaaccaagtgagacttattctcaaatgtgtgattaatcgtatgtgaataaagctcattttatgcttgtggggcgtatggtattgatagGTTTGGCGAACCAGAAAACTGTCACTGTTCAACCTGCTGGTAAAGACCAGTCCGTGTTGCTCGCAACAACCAAGACAAAGAAGCAAAACAAGCCTGCTGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC