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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gattaaagttaagtttctgattgttgtcagtcactgctgtgtttagattcactattaagtttcatttgaccaattttttgttcatatcttgtggtatcagGAGAAAGTGTTATGCAGAGTTTGTTTCGAGGGAGAGATTAACGTTGTACTGCTCCCATGTAGGCATCGTGTTCTTTGCAG

Basic information

species Glycine max
transcript GLYMA17G13040.1
intron # 12
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|51341177|gb|CO982494.1|CO982494
EST:     AAACTGAAATTACAAAGTTCAGCCAACAGGAGTATGAAAGACTTCAAAAT                         GAGAAAGTGTTATGCAGAGTTTGTTTCGAGGGAGAGATTAACGTTGTACTG
genomic: AAACTGAAATTACAAAGTTCAGCCAACAGGAGTATGAAAGACTTCAAAATgtataacaca ... gtggtatcagGAGAAAGTGTTATGCAGAGTTTGTTTCGAGGGAGAGATTAACGTTGTACTG
EST: gi|11413717|gb|BF425728.1|BF425728
EST:     AAAGACTTCAAAAT                         GAGAAAGTGTTATGCAGAGTTTGTTTCGAGGGAGAGATTAACGTTGTACTG
genomic: AAAGACTTCAAAATgtataacaca ... gtggtatcagGAGAAAGTGTTATGCAGAGTTTGTTTCGAGGGAGAGATTAACGTTGTACTG
EST: gi|4296915|gb|AI442543.1|AI442543
EST:     AAACTGAAATTACAAAGTTCAGCCAACAGGAGTATGAAAGACTTCAAAAT                         GAGAAAGTGTTATGCAGAGTTTGTTTCGAGGGAGAGATTAACGTTGTACTG
genomic: AAACTGAAATTACAAAGTTCAGCCAACAGGAGTATGAAAGACTTCAAAATgtataacaca ... gtggtatcagGAGAAAGTGTTATGCAGAGTTTGTTTCGAGGGAGAGATTAACGTTGTACTG
EST: gi|19346249|gb|BM891129.1|BM891129
EST:     AAACTGAAATTACAAAGTTCAGCCAACAGGAGTATGAAAGACTTCAAAAT                         GAGAAAGTGTTATGCAGAGTTTGTTTCGAGGGAGAGATTAACGTTGTACTG
genomic: AAACTGAAATTACAAAGTTCAGCCAACAGGAGTATGAAAGACTTCAAAATgtataacaca ... gtggtatcagGAGAAAGTGTTATGCAGAGTTTGTTTCGAGGGAGAGATTAACGTTGTACTG
EST: gi|13479627|gb|BG508970.1|BG508970
EST:     AAACTGAAATTACAAAGTTCAGCCAACAGGAGTATGAAAGACTTCAAAAT                         GAGAAAGTGTTATGCAGAGTTTGTTTCGAGGGAGAGATTAACGTTGTACTG
genomic: AAACTGAAATTACAAAGTTCAGCCAACAGGAGTATGAAAGACTTCAAAATgtataacaca ... gtggtatcagGAGAAAGTGTTATGCAGAGTTTGTTTCGAGGGAGAGATTAACGTTGTACTG
EST: gi|11414150|gb|BF426161.1|BF426161
EST:     AAACTGAAATTACAAAGATCAGCCTACATGAGTATGAAAGACTTCAAAAT                         GAGACAGTGTTATGCAGAGTTTGGTTCGAGGGAGAGATTAACGTT
genomic: AAACTGAAATTACAAAGTTCAGCCAACAGGAGTATGAAAGACTTCAAAATgtataacaca ... gtggtatcagGAGAAAGTGTTATGCAGAGTTTGTTTCGAGGGAGAGATTAACGTT
EST: gi|8403908|gb|BE059542.1|BE059542
EST:     AAACTGAAATTACAAAGTTCAGCCAACAGGAGTATGAAAGACTTCAAAAT                         GAGAAAGTGTTATGCAGAGTTTGTTTCGAGGGAGAGATTAACGTTGTACTG
genomic: AAACTGAAATTACAAAGTTCAGCCAACAGGAGTATGAAAGACTTCAAAATgtataacaca ... gtggtatcagGAGAAAGTGTTATGCAGAGTTTGTTTCGAGGGAGAGATTAACGTTGTACTG
EST: gi|13791494|gb|BG654085.1|BG654085
EST:     AAACTGAAATTACAAAGTTCAGCCAACAGGAGTATGAAAGACTTCAAAAT                         GAGAAAGTGTTATGCAGAGTTTGTTTCGAGGGAGAGATTAACGTTGTACTG
genomic: AAACTGAAATTACAAAGTTCAGCCAACAGGAGTATGAAAGACTTCAAAATgtataacaca ... gtggtatcagGAGAAAGTGTTATGCAGAGTTTGTTTCGAGGGAGAGATTAACGTTGTACTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gattcactattaagtttcatttgaccaattttttgttcatatcttgtggtatcagGAGAAAGTGTTATGCAGAGTTTGTTTCGAGGGAGAGATTAACGTTGTACTGCTCCCATGTAGGCATCGTGTTCTTTGCAG
                  atttgac  putative branch site (score: 4)
                          aattttttgttcatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gattaaagttaagtttctgattgttgtcagtcactgctgtgtttagattcactattaagtttcatttgaccaattttttgttcatatcttgtggtatcagGAGAAAGTGTTATGCAGAGTTTGTTTCGAGGGAGAGATTAACGTTGTACTGCTCCCATGTAGGCATCGTGTTCTTTGCAG

- - - - - - gtttctg
- - - - - - - - - - -tgttgtc
- - - - - - - - - - - - - - - -cactgct