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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggattcttgtggacagtagacatgttgcattcattgtccccatttgccccatactaatgctgataatattatttttcagGTTATAAGGCTGACAGATTTCGGTGTAGAAGGAGCTGATGCGAAAAACATCTTTTATTTGAGGGAGGTTGACGATGCTGACAAATTGTACGCAGCAATCA

Basic information

species Glycine max
transcript GLYMA10G07820.1
intron # 5
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|209718426|gb|BW666238.1|BW666238
EST:     GAGGAGAAACATTCAGTTATCAGATTTTGATTGTTGCAACTGGCTCAACA                         GTTATAAGGCTGACAGATTTCGGTGTAGAAGGAGCTGATGCGAAAAACATC
genomic: GAGGAGAAACATTCAGTTATCAGATTTTGATTGTTGCAACTGGCTCAACAgtaaggattc ... tatttttcagGTTATAAGGCTGACAGATTTCGGTGTAGAAGGAGCTGATGCGAAAAACATC
EST: gi|192330173|gb|FK019798.1|FK019798
EST:     GAGGAGAAACGTTCAGTTATCAGATTTTGATTGTTGCAACTGGCTCAACA                         GTTATAAGGCTGACAGATTTCGGTGTAGAAGGAGCTGATGCGAAAAACATC
genomic: GAGGAGAAACATTCAGTTATCAGATTTTGATTGTTGCAACTGGCTCAACAgtaaggattc ... tatttttcagGTTATAAGGCTGACAGATTTCGGTGTAGAAGGAGCTGATGCGAAAAACATC
EST: gi|213595751|gb|DB955927.1|DB955927
EST:     GAGGAGAAACATTCAGTTATCAGATTTTGATTGTTGCAACTGGCTCAACA                         GTTATAAGGCTGACAGATTTCGGTGTAGAAGGAGCTGATGCGAAAAACATC
genomic: GAGGAGAAACATTCAGTTATCAGATTTTGATTGTTGCAACTGGCTCAACAgtaaggattc ... tatttttcagGTTATAAGGCTGACAGATTTCGGTGTAGAAGGAGCTGATGCGAAAAACATC
EST: gi|151411030|gb|EV280841.1|EV280841
EST:     GAGGAGAAACGTTCAGTTATCAGATTTTGATTGTTGCAACTGGCTCAACA                         GTTATAAGGCTGACAGATTTCGGTGTAGAAGGAGCTGATGCGAAAAACATC
genomic: GAGGAGAAACATTCAGTTATCAGATTTTGATTGTTGCAACTGGCTCAACAgtaaggattc ... tatttttcagGTTATAAGGCTGACAGATTTCGGTGTAGAAGGAGCTGATGCGAAAAACATC
EST: gi|209697959|gb|BW673018.1|BW673018
EST:     GAGGAGAAACATTCAGTTATCAGATTTTGATTGTTGCAACTGGCTCAACA                         GTTATAAGGCTGACAGATTTCGGTGTAGAAGGAGCTGATGCGAAAAACATC
genomic: GAGGAGAAACATTCAGTTATCAGATTTTGATTGTTGCAACTGGCTCAACAgtaaggattc ... tatttttcagGTTATAAGGCTGACAGATTTCGGTGTAGAAGGAGCTGATGCGAAAAACATC
EST: gi|213615151|gb|DB963363.1|DB963363
EST:     GAGGAGAAACATTCAGTTATCAGATTTTGATTGTTGCAACTGGCTCAACA                         GTTATAAGGCTGACAGATTTCGGTGTAGAAGGAGCTGATGCGAAAAACATC
genomic: GAGGAGAAACATTCAGTTATCAGATTTTGATTGTTGCAACTGGCTCAACAgtaaggattc ... tatttttcagGTTATAAGGCTGACAGATTTCGGTGTAGAAGGAGCTGATGCGAAAAACATC
EST: gi|254344724|gb|GR851314.1|GR851314
EST:     GATTGTTGCAACTGGCTCAACA                         GTTATAAGGCTGACAGATTTCGGTGTAGAAGGAGCTGATGCGAAAAACATC
genomic: GATTGTTGCAACTGGCTCAACAgtaaggattc ... tatttttcagGTTATAAGGCTGACAGATTTCGGTGTAGAAGGAGCTGATGCGAAAAACATC
EST: gi|192327629|gb|FK021306.1|FK021306
EST:     GAGGAGAAACATTCAGTTATCAGATTTTGATTGTTGCAACTGGCTCGACA                         GTTATAAGGCTGACAGATTTCGGTGTAGAAGGAGCTGATGCGAAAAACATC
genomic: GAGGAGAAACATTCAGTTATCAGATTTTGATTGTTGCAACTGGCTCAACAgtaaggattc ... tatttttcagGTTATAAGGCTGACAGATTTCGGTGTAGAAGGAGCTGATGCGAAAAACATC
EST: gi|192328367|gb|FK020078.1|FK020078
EST:     GAGGAGAAACGTTCAGTTATCAGATTTTGATTGTTGCAACTGGCTCAACA                         GTTATAAGGCTGACAGATTTCGGTGTAGAAGGAGCTGATGCGAAAAACATC
genomic: GAGGAGAAACATTCAGTTATCAGATTTTGATTGTTGCAACTGGCTCAACAgtaaggattc ... tatttttcagGTTATAAGGCTGACAGATTTCGGTGTAGAAGGAGCTGATGCGAAAAACATC
EST: gi|209697684|gb|BW655585.1|BW655585
EST:     GAGGAGAAACATTCAGTTATCAGATTTTGATTGTTGCAACTGGCTCAACA                         GTTATAAGGCTGACAGATTTCGGTGTAGAAGGAGCTGATGCGAAAAACATC
genomic: GAGGAGAAACATTCAGTTATCAGATTTTGATTGTTGCAACTGGCTCAACAgtaaggattc ... tatttttcagGTTATAAGGCTGACAGATTTCGGTGTAGAAGGAGCTGATGCGAAAAACATC
EST: gi|254340648|gb|GR854376.1|GR854376
EST:     GAGGAGAAACATTCAGTTATCAGATTTTGATTGTTGCAACTGGCTCAACA                         GTTATAAGGCTGACAGATTTCGGTGTAGAAGGAGCTGATGCGAAAAACATC
genomic: GAGGAGAAACATTCAGTTATCAGATTTTGATTGTTGCAACTGGCTCAACAgtaaggattc ... tatttttcagGTTATAAGGCTGACAGATTTCGGTGTAGAAGGAGCTGATGCGAAAAACATC
EST: gi|192300239|gb|FG989361.1|FG989361
EST:     GAGGAGAAACATTCAGTTATCAGATTTTGATTGTTGCAACTGGCTCAACA                         GTTATAAGGCTGACAGATTTCGGTGTAGAAGGAGCTGATGCGAAAAACATC
genomic: GAGGAGAAACATTCAGTTATCAGATTTTGATTGTTGCAACTGGCTCAACAgtaaggattc ... tatttttcagGTTATAAGGCTGACAGATTTCGGTGTAGAAGGAGCTGATGCGAAAAACATC
EST: gi|21676903|gb|BQ629254.1|BQ629254
EST:     GAGGAGAAACATTCAGTTATCAGATTTTGATTGTTGCAACTGGCTCAACA                         GTTATAAGGCTGACAGATTTCGGTGTAGAAG
genomic: GAGGAGAAACATTCAGTTATCAGATTTTGATTGTTGCAACTGGCTCAACAgtaaggattc ... tatttttcagGTTATAAGGCTGACAGATTTCGGTGTAGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgcattcattgtccccatttgccccatactaatgctgataatattatttttcagGTTATAAGGCTGACAGATTTCGGTGTAGAAGGAGCTGATGCGAAAAACATCTTTTATTTGAGGGAGGTTGACGATGCTGACAAATTGTACGCAGCAATCA
                                            ttatttttc  CT-rich tract
                              taatgctgataatatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaggattcttgtggacagtagacatgttgcattcattgtccccatttgccccatactaatgctgataatattatttttcagGTTATAAGGCTGACAGATTTCGGTGTAGAAGGAGCTGATGCGAAAAACATCTTTTATTTGAGGGAGGTTGACGATGCTGACAAATTGTACGCAGCAATCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG