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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtccccttttgctcgttttagctttttgagattattgttctgatgagtttgtggaactaaattttgatatgcttgcattgaatttataaattcatacagAGCAAAAAGGGTTAGGTTTCCAAAGGGAAAGAAAGTGAAGCCAGGAGATGAAGTGGTGGTGGACAAAGCAAATGTTGAGGAGGGTGAAGAAGTTGACTTG

Basic information

species Glycine max
transcript GLYMA08G19130.1
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|11412981|gb|BF424992.1|BF424992
EST:     AAACGCCCCTTTATGGAAGAAGACGACGACGAATTCTCCAAAAAGCCACC                         AGCAAAAAGGGTTAGGTTTCCAAAGGGAAAGAAAGTGAAGCCAGGAGATGA
genomic: AAACGCCCCTTTATGGAAGAAGACGACGACGAATTCTCCAAAAAGCCACCgtaatttctt ... attcatacagAGCAAAAAGGGTTAGGTTTCCAAAGGGAAAGAAAGTGAAGCCAGGAGATGA
EST: gi|207746918|gb|GD718839.1|GD718839
EST:     AACGCCCCTTTATGGAAGAAGACGACGACGAATTCTCCAAAAAAGCCACC                         AGCAAAAAGGGTTAGGTTTCCAAAGGGAAAGAAAGTGAAGCCAGGAGATGA
genomic: AACGCCCCTTTATGGAAGAAGACGACGACGAATTCTCCAAAAA-GCCACCgtaatttctt ... attcatacagAGCAAAAAGGGTTAGGTTTCCAAAGGGAAAGAAAGTGAAGCCAGGAGATGA
EST: gi|7145810|gb|AW507732.1|AW507732
EST:     AAACGCCCCTTTATGGAAGAAGACGACGACGAATTCTCCAAAAAGCCACC                         AGCAAAAAGGGTTAGGTTTCCAAAGGGAAAGAAAGTGAAGCCAGGAGATGA
genomic: AAACGCCCCTTTATGGAAGAAGACGACGACGAATTCTCCAAAAAGCCACCgtaatttctt ... attcatacagAGCAAAAAGGGTTAGGTTTCCAAAGGGAAAGAAAGTGAAGCCAGGAGATGA
EST: gi|193652041|gb|FK594217.1|FK594217
EST:     AACGCCCCTTTATGGAAGAAGACGACGACGAATTCTCCAAAAAAGCCACC                         AGCAAAAAGGGTTAGGTTTCCAAAGGGAAAGGAAGTGAAGCCAGGAGATGA
genomic: AACGCCCCTTTATGGAAGAAGACGACGACGAATTCTCCAAAAA-GCCACCgtaatttctt ... attcatacagAGCAAAAAGGGTTAGGTTTCCAAAGGGAAAGAAAGTGAAGCCAGGAGATGA
EST: gi|7145887|gb|AW507809.1|AW507809
EST:     AAACGCCCCTTTATGGAAGAAGACGACGACGAATTCTCCAAAAAGCCACC                         AGCAAAAAGGGTTAGGTTTCCAAAGGGAAAGAAAGTGAAGCCAGGAGATGA
genomic: AAACGCCCCTTTATGGAAGAAGACGACGACGAATTCTCCAAAAAGCCACCgtaatttctt ... attcatacagAGCAAAAAGGGTTAGGTTTCCAAAGGGAAAGAAAGTGAAGCCAGGAGATGA
EST: gi|7042214|gb|AW472108.1|AW472108
EST:     AAACGCCCCTTTATGGAAGAAGACGACGACGAATTCTCCAAAAAGCCACC                         AGCAAAAAGGGTTAGGTTTCCAAAGGGAAAGAAAGTGAAGCCAGGAGATGA
genomic: AAACGCCCCTTTATGGAAGAAGACGACGACGAATTCTCCAAAAAGCCACCgtaatttctt ... attcatacagAGCAAAAAGGGTTAGGTTTCCAAAGGGAAAGAAAGTGAAGCCAGGAGATGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagtttgtggaactaaattttgatatgcttgcattgaatttataaattcatacagAGCAAAAAGGGTTAGGTTTCCAAAGGGAAAGAAAGTGAAGCCAGGAGATGAAGTGGTGGTGGACAAAGCAAATGTTGAGGAGGGTGAAGAAGTTGACTTG
                                attgaatttataaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgtccccttttgctcgttttagctttttgagattattgttctgatgagtttgtggaactaaattttgatatgcttgcattgaatttataaattcatacagAGCAAAAAGGGTTAGGTTTCCAAAGGGAAAGAAAGTGAAGCCAGGAGATGAAGTGGTGGTGGACAAAGCAAATGTTGAGGAGGGTGAAGAAGTTGACTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT
- tcccctt
- - - - - - - - - - - - - - - - - - - -tctgatg
- - - - - - - - - - - - - - - - - - - - - - - -gtttgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcttgca