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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ataaatatatggacaaacagattaacatacgataatcaattttcaaatttgacttgcttaactctaataagtaatgagttgtttgtatgaaccttcacagGTACGTGTATATACACCAAAGAGGGTGTTTCAAGAGCTAGAAGTTGCAAAGGACGAATATATTCGAGCTAACTTAGGCATACGCAAGGACCAAAAAATAC

Basic information

species Glycine max
transcript GLYMA11G06610.1
intron # 6
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|208142174|gb|GD934906.1|GD934906
EST:     AGCTTCTTTCACACTTTGCACTCTGTTCAGGAAACCATTCTGATCCTGCG                         GTACGTGTATATACACCAAAGAGGGTGTTTCAAGAGCTAGAAGTTGCAAAG
genomic: AGCCTCTTTCACACTTTGCACTCTGTTCAGGAAACCATTCTGATCCTGCGgtattccctt ... accttcacagGTACGTGTATATACACCAAAGAGGGTGTTTCAAGAGCTAGAAGTTGCAAAG
EST: gi|208037857|gb|GD833995.1|GD833995
EST:     AACCTCTTTCACACTTTGCACTCTGTTCAGGAAACCATTCTGATCCTGCG                         GTACGTGTATATACACCAAAGAGGGTGTTTCAAGAGCTAGAAGTTGCAAAG
genomic: AGCCTCTTTCACACTTTGCACTCTGTTCAGGAAACCATTCTGATCCTGCGgtattccctt ... accttcacagGTACGTGTATATACACCAAAGAGGGTGTTTCAAGAGCTAGAAGTTGCAAAG
EST: gi|207679636|gb|GD663586.1|GD663586
EST:     AGCCTCTTTCACACTTTGCACTCTGTTCAGGAAACCATTCTGATCCTGCG                         GTACGTGTATATACACCAAAGAGGGTGTTTCAAGAGCTAGAAGTTGCAAAG
genomic: AGCCTCTTTCACACTTTGCACTCTGTTCAGGAAACCATTCTGATCCTGCGgtattccctt ... accttcacagGTACGTGTATATACACCAAAGAGGGTGTTTCAAGAGCTAGAAGTTGCAAAG
EST: gi|14259677|gb|BG882585.1|BG882585
EST:     AGCCTCTTTCACACTTTGCACTCTGTTCAGGAAACCATTCTGATCCTGCG                         GTACGTGTTTATACACCAAAGACGGTGTTTCAAGAGCTACAAGTTGCAAAC
genomic: AGCCTCTTTCACACTTTGCACTCTGTTCAGGAAACCATTCTGATCCTGCGgtattccctt ... accttcacagGTACGTGTATATACACCAAAGAGGGTGTTTCAAGAGCTAGAAGTTGCAAAG
EST: gi|208233532|gb|GE033639.1|GE033639
EST:     AACCTCTTTCACACTTTGCACTCTGTTCAGGAAACCATTCTGATCCTGCG                         GTACGTGTATATACACCAAAGAGG
genomic: AGCCTCTTTCACACTTTGCACTCTGTTCAGGAAACCATTCTGATCCTGCGgtattccctt ... accttcacagGTACGTGTATATACACCAAAGAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatttgacttgcttaactctaataagtaatgagttgtttgtatgaaccttcacagGTACGTGTATATACACCAAAGAGGGTGTTTCAAGAGCTAGAAGTTGCAAAGGACGAATATATTCGAGCTAACTTAGGCATACGCAAGGACCAAAAAATAC
                ctctaat  putative branch site (score: 3)
                                              ccttcac  putative PPT
                   taataagtaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ataaatatatggacaaacagattaacatacgataatcaattttcaaatttgacttgcttaactctaataagtaatgagttgtttgtatgaaccttcacagGTACGTGTATATACACCAAAGAGGGTGTTTCAAGAGCTAGAAGTTGCAAAGGACGAATATATTCGAGCTAACTTAGGCATACGCAAGGACCAAAAAATAC

- - - - - - acaaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtttgt