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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gatttggtaactatcttttcattcatgtttttgtgcttgcacttgctcttttccatttcttgttggctgaatcttactgactggaattgctgttggccagGGTCAAGGTTGCTAATCAGGTGGGAAGTATTCCGCTTGATTGGGCTTTGGGAGCTTTTATTCTGCAAACAGCAGCTGACGCAGATATAAAGAACCATAAT

Basic information

species Glycine max
transcript GLYMA01G05750.1
intron # 7
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|192314365|gb|FK006291.1|FK006291
EST:     ATTGTTGCTCTGCTTCACGACAGTCTTGGAATTGCTTTGGATGATGAGAG                         GGTCAAGGTTGCTAATCAGGTGGGAAGTATTCCGCTTGATTGGGCTTTGGG
genomic: ATTGTTGCTCTGCTTCACGACAGTCTTGGAATTGCTTTGGATGATGAGAGgtattcctgc ... tgttggccagGGTCAAGGTTGCTAATCAGGTGGGAAGTATTCCGCTTGATTGGGCTTTGGG
EST: gi|192314364|gb|FK006290.1|FK006290
EST:     ATTGTTGCTCTGCTTCACGACAGTCTTGGAATTGCTTTGGATGATGAGAG                         GGTCAAGGTTGCTAATCAGGTGGGAAGTATTCCGCTTGATTGGGCTTTGGG
genomic: ATTGTTGCTCTGCTTCACGACAGTCTTGGAATTGCTTTGGATGATGAGAGgtattcctgc ... tgttggccagGGTCAAGGTTGCTAATCAGGTGGGAAGTATTCCGCTTGATTGGGCTTTGGG
EST: gi|151396416|gb|EV266293.1|EV266293
EST:     ATTGTTGCTCTGCTTCACGACAGTCTTGGAATTGCTTTGGATGATGAGAG                         GGTCAAGGTTGCTAATCAGGTGGGAAGTATTCCGCTTGATTGGGCTTTGGG
genomic: ATTGTTGCTCTGCTTCACGACAGTCTTGGAATTGCTTTGGATGATGAGAGgtattcctgc ... tgttggccagGGTCAAGGTTGCTAATCAGGTGGGAAGTATTCCGCTTGATTGGGCTTTGGG
EST: gi|51335833|gb|CO979699.1|CO979699
EST:     ATTGTTGCTCTGCTTCACGACAGTCTTGGAATTGCTTTGGATGATGAGAG                         GGTCAAGGTTGCTAATCAGGTGGGAAGTATTCCGCTTGATTGGGCTTTGGG
genomic: ATTGTTGCTCTGCTTCACGACAGTCTTGGAATTGCTTTGGATGATGAGAGgtattcctgc ... tgttggccagGGTCAAGGTTGCTAATCAGGTGGGAAGTATTCCGCTTGATTGGGCTTTGGG
EST: gi|12690822|gb|BG157158.1|BG157158
EST:     ATTGTTGCTCTGCTTCACGACAGTCTTGGAATTGCTTTGGATGATGAGAG                         GGTCAAGGTTGCTAATCAGGTGGGAAGTATTCCGCTTGATTGGGCTTTGGG
genomic: ATTGTTGCTCTGCTTCACGACAGTCTTGGAATTGCTTTGGATGATGAGAGgtattcctgc ... tgttggccagGGTCAAGGTTGCTAATCAGGTGGGAAGTATTCCGCTTGATTGGGCTTTGGG
EST: gi|9440475|gb|BE440979.1|BE440979
EST:     ATTGTTGCTCTGCTTCACGACAGTCTTGGAATTGCTTTGGATGATGAGAG                         GGTCAAGGTTGCTAATCAGGTGGGAAGTATTCCGCTTGATTGGGCTTTGGG
genomic: ATTGTTGCTCTGCTTCACGACAGTCTTGGAATTGCTTTGGATGATGAGAGgtattcctgc ... tgttggccagGGTCAAGGTTGCTAATCAGGTGGGAAGTATTCCGCTTGATTGGGCTTTGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcttttccatttcttgttggctgaatcttactgactggaattgctgttggccagGGTCAAGGTTGCTAATCAGGTGGGAAGTATTCCGCTTGATTGGGCTTTGGGAGCTTTTATTCTGCAAACAGCAGCTGACGCAGATATAAAGAACCATAAT
                             tactgac  putative branch site (score: 1)
         atttctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gatttggtaactatcttttcattcatgtttttgtgcttgcacttgctcttttccatttcttgttggctgaatcttactgactggaattgctgttggccagGGTCAAGGTTGCTAATCAGGTGGGAAGTATTCCGCTTGATTGGGCTTTGGGAGCTTTTATTCTGCAAACAGCAGCTGACGCAGATATAAAGAACCATAAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - -cattcat
- - - - - - - - - - - - - - - - - gcttgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggctgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tactgac