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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgggccttttgatcaattaacatggcataaaggggtttgtttgattcttaaaagagtttggtctaatagcttcaattttgttccttcaaattttttgcagGGCTTATACAACTACCACAATTTGAAGGATTTACTAGGTGATGGGATCTTCACTGTTGATGGCGAGAAATGGCGGGAACAAAGGAAGATATCAAGTCATG

Basic information

species Glycine max
transcript GLYMA07G09160.1
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|254317245|gb|GR826190.1|GR826190
EST:     CAACTAATGTTGAGTATATACTCAAAACCAATTTTGAGAATTATGGAAAG                         GGCTTATACAACTACCACAATTTGAAGGATTTACTAGGTGATGGGATCTTC
genomic: CAACTAATGTTGAGTATATACTCAAAACCAATTTTGAGAATTATGGAAAGgtaggtactt ... ttttttgcagGGCTTATACAACTACCACAATTTGAAGGATTTACTAGGTGATGGGATCTTC
EST: gi|19269065|gb|BM885321.1|BM885321
EST:     CAACTAATGTTGAGTATATACTCAAAACCAATTTTGAGAATTATGGAAAG                         GGCTTATACAACTACCACAATTTGAAGGATTTACTAGGTGATGGGATCTTC
genomic: CAACTAATGTTGAGTATATACTCAAAACCAATTTTGAGAATTATGGAAAGgtaggtactt ... ttttttgcagGGCTTATACAACTACCACAATTTGAAGGATTTACTAGGTGATGGGATCTTC
EST: gi|213596194|gb|DB960154.1|DB960154
EST:     CAACTAATGTTGAGTATATACTCAAAACCAATTTTGAGAATTATGGAAAG                         GGCTTATACAACTACCACAATTTGAAGGATTTACTAGGTGATGGGATCTTC
genomic: CAACTAATGTTGAGTATATACTCAAAACCAATTTTGAGAATTATGGAAAGgtaggtactt ... ttttttgcagGGCTTATACAACTACCACAATTTGAAGGATTTACTAGGTGATGGGATCTTC
EST: gi|209711863|gb|BW674127.1|BW674127
EST:     CAACTAATGTTGAGTATATACTCAAAACCAATTTTGAGAATTATGGAAAG                         GGCTTATACAACTACCACAATTTGAAGGATTTACTAGGTGATGGGATCTTC
genomic: CAACTAATGTTGAGTATATACTCAAAACCAATTTTGAGAATTATGGAAAGgtaggtactt ... ttttttgcagGGCTTATACAACTACCACAATTTGAAGGATTTACTAGGTGATGGGATCTTC
EST: gi|209719366|gb|BW674444.1|BW674444
EST:     CAACTAATGTTGAGTATATACTCAAAACCAATTTTGAGAATTATGGAAAG                         GGCTTATACAACTACCACAATTTGAAGGATTTACTAGGTGATGGGATCTTC
genomic: CAACTAATGTTGAGTATATACTCAAAACCAATTTTGAGAATTATGGAAAGgtaggtactt ... ttttttgcagGGCTTATACAACTACCACAATTTGAAGGATTTACTAGGTGATGGGATCTTC
EST: gi|213600549|gb|DB960097.1|DB960097
EST:     CAACTAATGTTGAGTATATACTCAAAACCAATTTTGAGAATTATGGAAAG                         GGCTTATACAACTACCACAATTTGAAGGATTTACTAGGTGATGGGATCTTC
genomic: CAACTAATGTTGAGTATATACTCAAAACCAATTTTGAGAATTATGGAAAGgtaggtactt ... ttttttgcagGGCTTATACAACTACCACAATTTGAAGGATTTACTAGGTGATGGGATCTTC
EST: gi|213592396|gb|DB971594.1|DB971594
EST:     CAACTAATGTTGAGTATATACTCAAAACCAATTTTGAGAATTATGGAAAG                         GGCTTATACAACTACCACAATTTGAAGGCACT-ACTAGGTGATGGGATCTT
genomic: CAACTAATGTTGAGTATATACTCAAAACCAATTTTGAGAATTATGGAAAGgtaggtactt ... ttttttgcagGGCTTATACAACTACCACAATTTGAAGG-ATTTACTAGGTGATGGGATCTT
EST: gi|192295638|gb|FG990492.1|FG990492
EST:     CAACTAATGTTGAGTATATACTCAAAACCAATTTTGAGAATTATGGAAAG                         GGCTTATACAACTACCACAATTTGAAGGATTTACTAGGTGATGGGATCTTC
genomic: CAACTAATGTTGAGTATATACTCAAAACCAATTTTGAGAATTATGGAAAGgtaggtactt ... ttttttgcagGGCTTATACAACTACCACAATTTGAAGGATTTACTAGGTGATGGGATCTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttaaaagagtttggtctaatagcttcaattttgttccttcaaattttttgcagGGCTTATACAACTACCACAATTTGAAGGATTTACTAGGTGATGGGATCTTCACTGTTGATGGCGAGAAATGGCGGGAACAAAGGAAGATATCAAGTCATG
               gtctaat  putative branch site (score: 3)
                                             ttttttgc  putative PPT
                                       ttcaaatttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgggccttttgatcaattaacatggcataaaggggtttgtttgattcttaaaagagtttggtctaatagcttcaattttgttccttcaaattttttgcagGGCTTATACAACTACCACAATTTGAAGGATTTACTAGGTGATGGGATCTTCACTGTTGATGGCGAGAAATGGCGGGAACAAAGGAAGATATCAAGTCATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - ccttttg
- - - - - - - - - - catggca
- - - - - - - - - - - - - - - - gggtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - -gagtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -agcttca