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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtgttacattcatatgacaattcttcgtaccttcatctatactttaggttgttgtctacgatgaaagttcatattattgtggtggttgctgttgtacagGGAGAAAATAATGACAACTCCAAGGAAAGAGAAAAAGAGAGAGGCTCGAAGAGAAGAGAAGGCTGAAAAAGCAGCTTTGTTAGAAAAG

Basic information

species Glycine max
transcript GLYMA12G14000.1
intron # 4
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|151406980|gb|EV276795.1|EV276795
EST:     AAAATGACACAGATGCGGATACGTATGAGGAAACTTGCTTTGAAGACAAG                         GGAGAAAATAATGACAACTCCAAG
genomic: AAAATGACACAGATGCGGATACGTATGAGGAAACTTGCTTTGAAGACAAGgtttgaaatc ... tgttgtacagGGAGAAAATAATGACAACTCCAAG
EST: gi|193396002|gb|FK361421.1|FK361421
EST:     AAAATGACACAGATGCGGATACGTATGAGGAAACTTGCTTTGAAGACAAG                         GGAGAAAATAATGAACAACTCCAAGGAAAGAGAAAA
genomic: AAAATGACACAGATGCGGATACGTATGAGGAAACTTGCTTTGAAGACAAGgtttgaaatc ... tgttgtacagGGAGAAAATAATGA-CAACTCCAAGGAAAGAGAAAA
EST: gi|207695636|gb|GD678587.1|GD678587
EST:     AAAATGACACAGATGCGGATACGTATGAGGAAACTTGCTTTGAAGACAAG                         GGAGAAAATAATGACAACTCCAAGG
genomic: AAAATGACACAGATGCGGATACGTATGAGGAAACTTGCTTTGAAGACAAGgtttgaaatc ... tgttgtacagGGAGAAAATAATGACAACTCCAAGG
EST: gi|17518730|gb|BM187772.1|BM187772
EST:     AAAATGACACAGATGCGGATACGTATGAGGAAACTTGCTTTGAAGACAAG                         GGAGAAAATAATGACAACTCCAAGGAAAGAGAAAAAGAGAGAGGCTCGAAG
genomic: AAAATGACACAGATGCGGATACGTATGAGGAAACTTGCTTTGAAGACAAGgtttgaaatc ... tgttgtacagGGAGAAAATAATGACAACTCCAAGGAAAGAGAAAAAGAGAGAGGCTCGAAG
EST: gi|193666282|gb|FK610591.1|FK610591
EST:     AAAATGACACAGATGCGGATACGTATGAGGAAACTTGCTTTGAAGACAAG                         GGAGAAAATAATGACAACTCCAA
genomic: AAAATGACACAGATGCGGATACGTATGAGGAAACTTGCTTTGAAGACAAGgtttgaaatc ... tgttgtacagGGAGAAAATAATGACAACTCCAA
EST: gi|208238531|gb|GE036259.1|GE036259
EST:     AAAATGACACAGATGCGGATACGTATGAGGAAACTTGCTTTGAAGACAAG                         GGAGAAAATAATGACAACTCCAAGG
genomic: AAAATGACACAGATGCGGATACGTATGAGGAAACTTGCTTTGAAGACAAGgtttgaaatc ... tgttgtacagGGAGAAAATAATGACAACTCCAAGG
EST: gi|193497351|gb|FK458259.1|FK458259
EST:     AAAATGACACAGATGCGGATACGTATGAGGAAACTTGCTTTGAAGACAAG                         GGAGAAAATAATGACA
genomic: AAAATGACACAGATGCGGATACGTATGAGGAAACTTGCTTTGAAGACAAGgtttgaaatc ... tgttgtacagGGAGAAAATAATGACA
EST: gi|193380369|gb|FK346899.1|FK346899
EST:     AAAATGACACAGATGCGGATACGTATGAGGAAACTCGCTTTGAAGACAAG                         GGAGAAAATAATGACAACTCCAAGG
genomic: AAAATGACACAGATGCGGATACGTATGAGGAAACTTGCTTTGAAGACAAGgtttgaaatc ... tgttgtacagGGAGAAAATAATGACAACTCCAAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taggttgttgtctacgatgaaagttcatattattgtggtggttgctgttgtacagGGAGAAAATAATGACAACTCCAAGGAAAGAGAAAAAGAGAGAGGCTCGAAGAGAAGAGAAGGCTGAAAAAGCAGCTTTGTTAGAAAAG
                   aaagttcatattatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgtgttacattcatatgacaattcttcgtaccttcatctatactttaggttgttgtctacgatgaaagttcatattattgtggtggttgctgttgtacagGGAGAAAATAATGACAACTCCAAGGAAAGAGAAAAAGAGAGAGGCTCGAAGAGAAGAGAAGGCTGAAAAAGCAGCTTTGTTAGAAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - acattca
- - - - - - - - - - - - - - -accttca
- - - - - - - - - - - - - - - - - - - - - - - - - tgttgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggtggt