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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cctccattatacttttccattatactttttattctttatttgataatgcatttgaaaataattacatatgctaaatacttggaatttgtctgcattgcagGGATACTGGACTGTAAATTTCACCCGAGACAGCCATGGTTATTTACGGCTGGTGCTGATAAACTGATTAAACTTTACTGTCATTAATATAAATATGGATA

Basic information

species Glycine max
transcript GLYMA16G00540.1
intron # 11
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|21601942|gb|BQ612273.1|BQ612273
EST:     TATTGTTCCTTTAGAAATTCTACGAGGTCATACCAATTCAAATGGGAGAG                         GGATACTGGACTGTAAATTTCACCCGAGACAGCCATGGTTATTTACGGCTG
genomic: TATTGTTCCTTTAGAAATTCTACGAGGTCATACCAATTCAAATGGGAGAGgtgagacttc ... tgcattgcagGGATACTGGACTGTAAATTTCACCCGAGACAGCCATGGTTATTTACGGCTG
EST: gi|192317825|gb|FK010187.1|FK010187
EST:     TATTGTTCCTTTAGAAATTCTACGAGGTCATACCAATTCAAATGGGAGAG                         GGATACTGGACTGTAAATTTCACCCGAGACAGCCATGGTTATTTACGGCTG
genomic: TATTGTTCCTTTAGAAATTCTACGAGGTCATACCAATTCAAATGGGAGAGgtgagacttc ... tgcattgcagGGATACTGGACTGTAAATTTCACCCGAGACAGCCATGGTTATTTACGGCTG
EST: gi|6454193|gb|AW184806.1|AW184806
EST:     TATTGTTCCTTTAGAAATTCTACGAGGTCATACCAATTCAAATGGGAGAG                         GGATACTGGACTGTAAATTTCACCCGAGACAGCCATGGTTATTTACGGCTG
genomic: TATTGTTCCTTTAGAAATTCTACGAGGTCATACCAATTCAAATGGGAGAGgtgagacttc ... tgcattgcagGGATACTGGACTGTAAATTTCACCCGAGACAGCCATGGTTATTTACGGCTG
EST: gi|151411237|gb|EV281048.1|EV281048
EST:     TATTGTTCCTTTAGAAATTCTACGAGGTCATACCAATTCAAATGGGAGAA                         GGATACTGGACTGTAAATTTCACCCGAGACAGCCATGGTTATTTACGGCTG
genomic: TATTGTTCCTTTAGAAATTCTACGAGGTCATACCAATTCAAATGGGAGAGgtgagacttc ... tgcattgcagGGATACTGGACTGTAAATTTCACCCGAGACAGCCATGGTTATTTACGGCTG
EST: gi|192317824|gb|FK010186.1|FK010186
EST:     TATTGTTCCTTTAGAAATTCTACGAGGTCATACCAATTCAAATGGGAGAG                         GGATACTGGACTGTAAATTTCACCCGAGACAGCCATGGTTATTTACGGCTG
genomic: TATTGTTCCTTTAGAAATTCTACGAGGTCATACCAATTCAAATGGGAGAGgtgagacttc ... tgcattgcagGGATACTGGACTGTAAATTTCACCCGAGACAGCCATGGTTATTTACGGCTG
EST: gi|58021823|gb|CX708564.1|CX708564
EST:     TATTGTTCCTTTAGAAATTCTACGAGGTCATACCAATTCAAATGGGAGAG                         GGATACTGGACTGTAAATTTCACCCGAGACAGCCATGGTTATTTACGGCTG
genomic: TATTGTTCCTTTAGAAATTCTACGAGGTCATACCAATTCAAATGGGAGAGgtgagacttc ... tgcattgcagGGATACTGGACTGTAAATTTCACCCGAGACAGCCATGGTTATTTACGGCTG
EST: gi|51337601|gb|CO981467.1|CO981467
EST:     TATTGTTCCTTTAGAAATTCTACGAGGTCATACCAATTCAAATGGGAGAG                         GGATACTGGACTGTAAATTTCACCCGAGACAGCCATGGTTATTTACGGCTG
genomic: TATTGTTCCTTTAGAAATTCTACGAGGTCATACCAATTCAAATGGGAGAGgtgagacttc ... tgcattgcagGGATACTGGACTGTAAATTTCACCCGAGACAGCCATGGTTATTTACGGCTG
EST: gi|15814451|gb|BI786726.1|BI786726
EST:     TATTGTTCCTTTAGAAATTCTACGAGGTCATACCAATTCAAATGGGAGAG                         GGATACTGGACTGTAAATTTCACCCGAGACAGCCATGGTTATTTACGGCTG
genomic: TATTGTTCCTTTAGAAATTCTACGAGGTCATACCAATTCAAATGGGAGAGgtgagacttc ... tgcattgcagGGATACTGGACTGTAAATTTCACCCGAGACAGCCATGGTTATTTACGGCTG
EST: gi|23730690|gb|BU763441.1|BU763441
EST:     TATTGTTCCTTTAGAAATTCTACGAGGTCATACCAATTCAAATGGGAGAG                         GGATACTGGACTGTAAATTTCACCCGAGACAGCCATGGTTATTTACGGCTG
genomic: TATTGTTCCTTTAGAAATTCTACGAGGTCATACCAATTCAAATGGGAGAGgtgagacttc ... tgcattgcagGGATACTGGACTGTAAATTTCACCCGAGACAGCCATGGTTATTTACGGCTG
EST: gi|22932695|gb|BU549834.1|BU549834
EST:     TATTGTTCCTTTAGAAATTCTACGAGGTCATACCAATTCAAATGGGAGAG                         GGATACTGGACTGTAAATTTCACCCGAGACAGCCATGGTTATTTACGGCTG
genomic: TATTGTTCCTTTAGAAATTCTACGAGGTCATACCAATTCAAATGGGAGAGgtgagacttc ... tgcattgcagGGATACTGGACTGTAAATTTCACCCGAGACAGCCATGGTTATTTACGGCTG
EST: gi|22927092|gb|BU544231.1|BU544231
EST:     TATTGTTCCTTTAGAAATTCTACGAGGTCATACCAATTCAAATGGGAGAG                         GGATACTGGACTGTAAATTTCACCCGAGACAGCCATGGTTATTTACGGCTG
genomic: TATTGTTCCTTTAGAAATTCTACGAGGTCATACCAATTCAAATGGGAGAGgtgagacttc ... tgcattgcagGGATACTGGACTGTAAATTTCACCCGAGACAGCCATGGTTATTTACGGCTG
EST: gi|7590096|gb|AW705856.1|AW705856
EST:     TATTGTTCCTTTAGAAATTCTACGAGGTCATACCAATTCAAATGGGAGAG                         GGATACTGGACTGTANATTTCACCCGAGACAGCCATGGTTATTTACGGCTG
genomic: TATTGTTCCTTTAGAAATTCTACGAGGTCATACCAATTCAAATGGGAGAGgtgagacttc ... tgcattgcagGGATACTGGACTGTAAATTTCACCCGAGACAGCCATGGTTATTTACGGCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgcatttgaaaataattacatatgctaaatacttggaatttgtctgcattgcagGGATACTGGACTGTAAATTTCACCCGAGACAGCCATGGTTATTTACGGCTGGTGCTGATAAACTGATTAAACTTTACTGTCATTAATATAAATATGGATA
                       tgctaaa  putative branch site (score: 2)
                                       tttgtct  putative PPT
     tttgaaaataattaca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cctccattatacttttccattatactttttattctttatttgataatgcatttgaaaataattacatatgctaaatacttggaatttgtctgcattgcagGGATACTGGACTGTAAATTTCACCCGAGACAGCCATGGTTATTTACGGCTGGTGCTGATAAACTGATTAAACTTTACTGTCATTAATATAAATATGGATA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT
cctccat
- - - - - - - - - - - - - - - - - - - - - - - tgcattt
- - - - - - - - - - - - - - - - - - - - - - - - - - - aaaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catatgc