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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aggctggatattgttgattgataaaaaaatctacaaaatagatgtatattcttatgatgaatgagctgatctaatgtgtgctcatttacttcattaacagACTATTGCAGCAGATCTATCTCGTGCACCAAATAATCTATGCCAACTTGCCAGTGCCAGTGAGAACACAGTTGCTTCACCATTTGAGAATGAAAAAGGTT

Basic information

species Glycine max
transcript GLYMA14G02880.1
intron # 2
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|151402467|gb|EV272280.1|EV272280
EST:     TCTTATCCGGGCTTGCTGCTTCCTTGATATTTATTTCTCCAGCAAATCAG                         ACTATTGCAGCAGACCTATCTCGTGCACCAAATAATCTATGCCAACTTGCC
genomic: TCTTATCCGGGCTTGCTGCTTCCTTGATATTTATTTCTCCAGCAAATCAGgtttctactg ... tcattaacagACTATTGCAGCAGATCTATCTCGTGCACCAAATAATCTATGCCAACTTGCC
EST: gi|208233708|gb|GE029489.1|GE029489
EST:     TCTTATCCGGGCTTGCTGCTTCCTTGATATTTATTTCTCCAGCAAATCAG                         ACTATTGCAGCAGATCTA
genomic: TCTTATCCGGGCTTGCTGCTTCCTTGATATTTATTTCTCCAGCAAATCAGgtttctactg ... tcattaacagACTATTGCAGCAGATCTA
EST: gi|298173376|gb|HO016712.1|HO016712
EST:     TCTTATCCGGGCTTGCTGCTTCCTTGATATTTATTTCTCCAGCAAATCAG                         ACTATTGCAGCAGATCTATCTCGTGCACCAAATAATCTATGCCAACTTGCC
genomic: TCTTATCCGGGCTTGCTGCTTCCTTGATATTTATTTCTCCAGCAAATCAGgtttctactg ... tcattaacagACTATTGCAGCAGATCTATCTCGTGCACCAAATAATCTATGCCAACTTGCC
EST: gi|192329283|gb|FK020202.1|FK020202
EST:     TCTTATCCGGGCTTGCTGCTTCCTTGATATTTATTTCTCCAGCAAATCAG                         ACTATTGCAGCAGATCTATCTCGTGCACCAAATAATCTATGCCAACTTGCC
genomic: TCTTATCCGGGCTTGCTGCTTCCTTGATATTTATTTCTCCAGCAAATCAGgtttctactg ... tcattaacagACTATTGCAGCAGATCTATCTCGTGCACCAAATAATCTATGCCAACTTGCC
EST: gi|151397681|gb|EV267554.1|EV267554
EST:     TCTTATCCGGGCTTGCTGCTTCCTTGATATTTATTTCTCCAGCAAATCAG                         ACTATTGCAGCAGATCTATCTCGTGCACCAAATAATCTATGCCAACTTGCC
genomic: TCTTATCCGGGCTTGCTGCTTCCTTGATATTTATTTCTCCAGCAAATCAGgtttctactg ... tcattaacagACTATTGCAGCAGATCTATCTCGTGCACCAAATAATCTATGCCAACTTGCC
EST: gi|192298179|gb|FG991684.1|FG991684
EST:     TCTTATCCGGGCTTGCTGCTTCCTTGATATTTATTTCTCCAGCAAATCAG                         ACTATTGCAGCAGATCTATCTCGTGCACCAAATAATCTATGCCAACTTGCC
genomic: TCTTATCCGGGCTTGCTGCTTCCTTGATATTTATTTCTCCAGCAAATCAGgtttctactg ... tcattaacagACTATTGCAGCAGATCTATCTCGTGCACCAAATAATCTATGCCAACTTGCC
EST: gi|5760401|gb|AI965692.1|AI965692
EST:     TCTTATCCGGGCTTGCTGCTTCCTTGATATTTATTTCTCCAGCACATCAG                         ACTATTGCAGCAGATCTATCTCGTGCACCAAATAATCTATGCCAACTTGCC
genomic: TCTTATCCGGGCTTGCTGCTTCCTTGATATTTATTTCTCCAGCAAATCAGgtttctactg ... tcattaacagACTATTGCAGCAGATCTATCTCGTGCACCAAATAATCTATGCCAACTTGCC
EST: gi|298189122|gb|HO037525.1|HO037525
EST:     TCTTATCCGGGCTTGCTGCTTCCTTGATATTTATTTCTCCAGCAAATCAG                         ACTATTGCAGCAGATCTATCTCGTGCACCAAATAATCTATGCCAACTTGCC
genomic: TCTTATCCGGGCTTGCTGCTTCCTTGATATTTATTTCTCCAGCAAATCAGgtttctactg ... tcattaacagACTATTGCAGCAGATCTATCTCGTGCACCAAATAATCTATGCCAACTTGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atattcttatgatgaatgagctgatctaatgtgtgctcatttacttcattaacagACTATTGCAGCAGATCTATCTCGTGCACCAAATAATCTATGCCAACTTGCCAGTGCCAGTGAGAACACAGTTGCTTCACCATTTGAGAATGAAAAAGGTT
                       atctaat  putative branch site (score: 3)
                                       tttacttc  putative PPT
                                      atttacttcattaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aggctggatattgttgattgataaaaaaatctacaaaatagatgtatattcttatgatgaatgagctgatctaatgtgtgctcatttacttcattaacagACTATTGCAGCAGATCTATCTCGTGCACCAAATAATCTATGCCAACTTGCCAGTGCCAGTGAGAACACAGTTGCTTCACCATTTGAGAATGAAAAAGGTT

- - - - - -tgttgat
- - - - - - - - - - - aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaatgag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtgtgc