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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctgatgtagatttcaatatatttttcatttgtttatgcatctagatatactttcatatgactgattttttgtgttgtttcttacataattttccctctagATTTAGAAATGGATGGACCGGCTGGTCGAGGTGGTGCTGGACTGGACATGTTTCTGCCAAATTATAAATTGGGAAAAACACTTGGGATTGGATCTTTTGG

Basic information

species Glycine max
transcript GLYMA08G26180.1
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|193681693|gb|FK620867.1|FK620867
EST:     CTCGTTATTCTTCTTCACTCCCAAACTCCGTTCACTCCAACAACACTCTG                         ATTTAGAAATGGATGGACCGGCTGGTCGAGGTGGTGCTGGACTGGACATGT
genomic: CTCGTTATTCCTCTTCACTCCCAAACTCCGTTCACTCCAACAACACTCTGgtgagctttc ... ttccctctagATTTAGAAATGGATGGACCGGCTGGTCGAGGTGGTGCTGGACTGGACATGT
EST: gi|24206158|gb|BU965411.1|BU965411
EST:     CTCGTTATTCCTCTTCACTCCCAAACTCCGTTCACTCCAACAACACTCTG                         ATTTAGAAATGGATGGACCGGCTGGTCGAGGTGGTGCTGGACTGGACATGT
genomic: CTCGTTATTCCTCTTCACTCCCAAACTCCGTTCACTCCAACAACACTCTGgtgagctttc ... ttccctctagATTTAGAAATGGATGGACCGGCTGGTCGAGGTGGTGCTGGACTGGACATGT
EST: gi|207809083|gb|GD781717.1|GD781717
EST:     CTCGTTATTCCTCTTCACTCCCAAACTCCGTTCACTCCAACAACACTCTG                         ATTTAGAAATGGATGGACCGGCTGGTCGAGGTGGTGCTGGACTGGACATGT
genomic: CTCGTTATTCCTCTTCACTCCCAAACTCCGTTCACTCCAACAACACTCTGgtgagctttc ... ttccctctagATTTAGAAATGGATGGACCGGCTGGTCGAGGTGGTGCTGGACTGGACATGT
EST: gi|208207276|gb|GE007127.1|GE007127
EST:     CTCGTTATTCCTCTTCACTCCCAAACTCCGTTCACTCCAACAACACTCTG                         ATTTAGAAATGGATGGACCGGCTGGTCGAGGTGGTGCTGGACTGGACATGT
genomic: CTCGTTATTCCTCTTCACTCCCAAACTCCGTTCACTCCAACAACACTCTGgtgagctttc ... ttccctctagATTTAGAAATGGATGGACCGGCTGGTCGAGGTGGTGCTGGACTGGACATGT
EST: gi|18040286|gb|BM308580.1|BM308580
EST:     CTCGTTATTCCTCTTCACTCCCAAACTCCGTTCACTCCAACAACACTCTG                         ATTTAGAAATGGATGGACCGGCTGGTCGAGGTGGTGCTGGACTGGACATGT
genomic: CTCGTTATTCCTCTTCACTCCCAAACTCCGTTCACTCCAACAACACTCTGgtgagctttc ... ttccctctagATTTAGAAATGGATGGACCGGCTGGTCGAGGTGGTGCTGGACTGGACATGT
EST: gi|208058234|gb|GD859805.1|GD859805
EST:     CTCGTTATTCCTCTTCACTCCCAAACTCCGTTCACTCCAACAACACTCTG                         ATTTTAGAAATGGATGGACCGGCTGGTCGAGGTGGTGCTGGACTGGACATG
genomic: CTCGTTATTCCTCTTCACTCCCAAACTCCGTTCACTCCAACAACACTCTGgtgagctttc ... ttccctctagA-TTTAGAAATGGATGGACCGGCTGGTCGAGGTGGTGCTGGACTGGACATG
EST: gi|208056121|gb|GD852414.1|GD852414
EST:     CTCGTTATTCCTCTTCACTCCCAAACTCCGTTCACTCCAACAACACTCTG                         ATTTAGAAATGGATGGACCGGCTGGTCGAGGTGGTGCTGGACTGGACATGT
genomic: CTCGTTATTCCTCTTCACTCCCAAACTCCGTTCACTCCAACAACACTCTGgtgagctttc ... ttccctctagATTTAGAAATGGATGGACCGGCTGGTCGAGGTGGTGCTGGACTGGACATGT
EST: gi|213605368|gb|DB966917.1|DB966917
EST:     CTCGTTATTCCTCTTCACTCCCAAACTCCGTTCACTCCAACAACACTCTG                         ATTTAGAAATGGATGGACCGGCTGGTCGAGGTGGTGCTGGACTGGACATGT
genomic: CTCGTTATTCCTCTTCACTCCCAAACTCCGTTCACTCCAACAACACTCTGgtgagctttc ... ttccctctagATTTAGAAATGGATGGACCGGCTGGTCGAGGTGGTGCTGGACTGGACATGT
EST: gi|192305535|gb|FG998319.1|FG998319
EST:     CTCGTTATTCCTCTTCACTCCCAAACTCCGTTCACTCCAACAACACTCGG                         ATTTAGAAATGGATGGACCGGCTGGTCGAGGTGGTGCTGGACTGGACATGT
genomic: CTCGTTATTCCTCTTCACTCCCAAACTCCGTTCACTCCAACAACACTCTGgtgagctttc ... ttccctctagATTTAGAAATGGATGGACCGGCTGGTCGAGGTGGTGCTGGACTGGACATGT
EST: gi|209726300|gb|BW659613.1|BW659613
EST:     CTCGTTATTCCTCTTCACTCCCAAACTCCGTTCACTCCAACAACACTCTG                         ATTTAGAAATGGATGGACCGGCTGGTCGAGGTGGTGCTGGACTGGACATGT
genomic: CTCGTTATTCCTCTTCACTCCCAAACTCCGTTCACTCCAACAACACTCTGgtgagctttc ... ttccctctagATTTAGAAATGGATGGACCGGCTGGTCGAGGTGGTGCTGGACTGGACATGT
EST: gi|207818860|gb|GD790320.1|GD790320
EST:     CTCGTTATTCCTCTTCACTCCCAAACTCCGTTCACTCCAACAACACTCTG                         ATTTAGAAATGGATGGACCGGCTGGTCGAGGTGGTGCTGGACTGGACATGT
genomic: CTCGTTATTCCTCTTCACTCCCAAACTCCGTTCACTCCAACAACACTCTGgtgagctttc ... ttccctctagATTTAGAAATGGATGGACCGGCTGGTCGAGGTGGTGCTGGACTGGACATGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatactttcatatgactgattttttgtgttgtttcttacataattttccctctagATTTAGAAATGGATGGACCGGCTGGTCGAGGTGGTGCTGGACTGGACATGTTTCTGCCAAATTATAAATTGGGAAAAACACTTGGGATTGGATCTTTTGG
                                ttcttac  putative branch site (score: 2)
                                           ttttccctct  putative PPT
                               tttcttacataatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctgatgtagatttcaatatatttttcatttgtttatgcatctagatatactttcatatgactgattttttgtgttgtttcttacataattttccctctagATTTAGAAATGGATGGACCGGCTGGTCGAGGTGGTGCTGGACTGGACATGTTTCTGCCAAATTATAAATTGGGAAAAACACTTGGGATTGGATCTTTTGG

ctgatgt
- - - - - - - - - - - - - - - - -tatgcat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - atgactg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttttgtg