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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaacttgaaaccactagtgccttagaccaccttgaattttgaagtaaacagaattatatctattattaccattgatttatgttttcatgttttactacagGAGAATATAGAAACGCATTTGGAGGAGAAGACCAACATGACTGATGTTGTCTGCTGTTTGCAGCATTTGCAG

Basic information

species Glycine max
transcript GLYMA06G13240.2
intron # 3
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|8669741|gb|BE190848.1|BE190848
EST:     GGAAATCCTACACTGCCGAGTTCTTTGAGCTTGACCCTTGCACG                         GAGAATATAGAAACGCATTTGGAGGAGAAGACCAACATGACTGATGTTGTC
genomic: GGAAATCCTACACTGCCGAGTTCTTTGAGCTTGACCCTTGCACGgtgaccaatc ... tttactacagGAGAATATAGAAACGCATTTGGAGGAGAAGACCAACATGACTGATGTTGTC
EST: gi|298188464|gb|HO035157.1|HO035157
EST:     CTCACAGGAAATCCTACACTGCCGAGTTCTTTGAGCTTGACCCTTGCACG                         GAGAATATAGAAACGCATTTGGAGGAGAAGACCAACATGACTGATGTTGTC
genomic: CTCACAGGAAATCCTACACTGCCGAGTTCTTTGAGCTTGACCCTTGCACGgtgaccaatc ... tttactacagGAGAATATAGAAACGCATTTGGAGGAGAAGACCAACATGACTGATGTTGTC
EST: gi|151396980|gb|EV266853.1|EV266853
EST:     CTCACAGGAAATCCTACACTGCCGAGTTCTTTGAGCTTGACCCTTGCACG                         GAGAATATAGAAACGCATTTGGAGGAGAAGACCAACATGACTGATGTTGTC
genomic: CTCACAGGAAATCCTACACTGCCGAGTTCTTTGAGCTTGACCCTTGCACGgtgaccaatc ... tttactacagGAGAATATAGAAACGCATTTGGAGGAGAAGACCAACATGACTGATGTTGTC
EST: gi|193334289|gb|FK300095.1|FK300095
EST:     CTCACAGGAAATCCTACACTGCCGAGTTCTTTGAGCTTGACCCTTGCACG                         GAGAATATAGAAACGCATTTGGAGGAGAAGACCAACATGACTGATGTTATC
genomic: CTCACAGGAAATCCTACACTGCCGAGTTCTTTGAGCTTGACCCTTGCACGgtgaccaatc ... tttactacagGAGAATATAGAAACGCATTTGGAGGAGAAGACCAACATGACTGATGTTGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaacagaattatatctattattaccattgatttatgttttcatgttttactacagGAGAATATAGAAACGCATTTGGAGGAGAAGACCAACATGACTGATGTTGTCTGCTGTTTGCAGCATTTGCAG
                        cattgat  putative branch site (score: 4)
                                            ttttact  putative PPT
      aattatatctattatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaacttgaaaccactagtgccttagaccaccttgaattttgaagtaaacagaattatatctattattaccattgatttatgttttcatgttttactacagGAGAATATAGAAACGCATTTGGAGGAGAAGACCAACATGACTGATGTTGTCTGCTGTTTGCAGCATTTGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT