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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttactattttattttattcaaccttggagcgagtgtttatagccattgcttggaatgctaccgcattgccgttctaatcatactatttattcatagGCTGGTTTTGCTGATCCAAACTTGCCAGTCGCGATAGTTCGTCCTGCAGATTTTGAGGATGCAGCTAAGCAAGCATGCCAAACAAAACTTGAGAATGCCA

Basic information

species Glycine max
transcript GLYMA16G04790.1
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|16344845|gb|BI970440.1|BI970440
EST:     GACCGGGCTGCTGAG                         GCTGGTNNNGCTGATCCAAAC-TGNNCAGTCGCGATAGTTCGTCCTGCAGA
genomic: GACCGGGCTGCTGAGgtatttacta ... ttattcatagGCTGGTTTTGCTGATCCAAACTTG-CCAGTCGCGATAGTTCGTCCTGCAGA
EST: gi|208252952|gb|GE051514.1|GE051514
EST:     GACAGAAGAACC-TTTTGTTGCCTCTTTCTTCTTTGACCGGGCTGCTGAG                         GCTGGTTTTGCTGATCCAAACTTGCCAGTCGCGATAGTTCGTCCTGCAGAT
genomic: GACAGAAGAACCTTTTTGTTGCCTCTTTCTTCTTTGACCGGGCTGCTGAGgtatttacta ... ttattcatagGCTGGTTTTGCTGATCCAAACTTGCCAGTCGCGATAGTTCGTCCTGCAGAT
EST: gi|192322324|gb|FK014565.1|FK014565
EST:     GACAGAAGAACCTTTTTGTTGCCTCTTTCTTCTTTGACCGGGCTGCTGAG                         GCTGGTTTTGCTGATCCAAACTTGCCAGTCGCGATAGTTCGTCCTGCAGAT
genomic: GACAGAAGAACCTTTTTGTTGCCTCTTTCTTCTTTGACCGGGCTGCTGAGgtatttacta ... ttattcatagGCTGGTTTTGCTGATCCAAACTTGCCAGTCGCGATAGTTCGTCCTGCAGAT
EST: gi|51337808|gb|CO981674.1|CO981674
EST:     GACAGAAGAACCTTTTTGTTGCCTCTTTCTTCTTTGACCGGGCTGCTGAG                         GCTGGTTTTGCTGATCCAAACTTGCCAGTCGCGATAGTTCGTCCTGCAGAT
genomic: GACAGAAGAACCTTTTTGTTGCCTCTTTCTTCTTTGACCGGGCTGCTGAGgtatttacta ... ttattcatagGCTGGTTTTGCTGATCCAAACTTGCCAGTCGCGATAGTTCGTCCTGCAGAT
EST: gi|57575136|gb|CX548111.1|CX548111
EST:     GACAGAAGAACCTTTTTGTTGCCTCTTTCTTCTTTGACCGGGCTGCTGAG                         GCTGGTTTTGCTGATCCAAACTTGCCAGTCGCGATAGTTCGTCCTGCAGAT
genomic: GACAGAAGAACCTTTTTGTTGCCTCTTTCTTCTTTGACCGGGCTGCTGAGgtatttacta ... ttattcatagGCTGGTTTTGCTGATCCAAACTTGCCAGTCGCGATAGTTCGTCCTGCAGAT
EST: gi|31306230|gb|CD391433.1|CD391433
EST:     CTCTTTCTTCTTTGACCGGCCTGCTGAG                         GCTGGTTTTGCTGATCCCAACTTGCCAGTCGCGATAGTTCGTCCTGCAGAT
genomic: CTCTTTCTTCTTTGACCGGGCTGCTGAGgtatttacta ... ttattcatagGCTGGTTTTGCTGATCCAAACTTGCCAGTCGCGATAGTTCGTCCTGCAGAT
EST: gi|4297390|gb|AI442611.1|AI442611
EST:     AGAAGAACCTTTTTGTTGCCTCTTTCTTCTTTGACCGGGCTGCTGAG                         GCTGGTTTTGCTGATCCAAACTTGCCAGTCGCGATAGTTCGTCCTGCAGAT
genomic: AGAAGAACCTTTTTGTTGCCTCTTTCTTCTTTGACCGGGCTGCTGAGgtatttacta ... ttattcatagGCTGGTTTTGCTGATCCAAACTTGCCAGTCGCGATAGTTCGTCCTGCAGAT
EST: gi|193630589|gb|FK580446.1|FK580446
EST:     GACCGGGCTGCTGAG                         GCTGGTTTTGCTGATCCAAACTTGCCAGTCGCGATAGTTCGTCCTGCAGAT
genomic: GACCGGGCTGCTGAGgtatttacta ... ttattcatagGCTGGTTTTGCTGATCCAAACTTGCCAGTCGCGATAGTTCGTCCTGCAGAT
EST: gi|6072975|gb|AW102362.1|AW102362
EST:     GACANAANAACCTTTTTGTTGCCTCTTTCTTCTTTGACCGGGCTGCTGAG                         GCTGGTTTTGCTGATCCAAACTTGCCAGTCGCGATAGTTCGTCCTGCAGAT
genomic: GACAGAAGAACCTTTTTGTTGCCTCTTTCTTCTTTGACCGGGCTGCTGAGgtatttacta ... ttattcatagGCTGGTTTTGCTGATCCAAACTTGCCAGTCGCGATAGTTCGTCCTGCAGAT
EST: gi|207775207|gb|GD749536.1|GD749536
EST:     GACAGAAGAACCTTTTTGTTGCCTCTTTCTTCTTTGACCGGGCTGCTGAG                         GCTGGTTTTGCTGATCCAAACTTGCCAGTCGCGATAGTTCGTCCTGCAGAT
genomic: GACAGAAGAACCTTTTTGTTGCCTCTTTCTTCTTTGACCGGGCTGCTGAGgtatttacta ... ttattcatagGCTGGTTTTGCTGATCCAAACTTGCCAGTCGCGATAGTTCGTCCTGCAGAT
EST: gi|6846435|gb|AW348725.1|AW348725
EST:     CTTTCTTCTTTGACCGGGCTGCTGAG                         GCTGGTTTTGCTGATCCAAACTTGCCAGTCGCGATAGTTCGTCCTGCAGAT
genomic: CTTTCTTCTTTGACCGGGCTGCTGAGgtatttacta ... ttattcatagGCTGGTTTTGCTGATCCAAACTTGCCAGTCGCGATAGTTCGTCCTGCAGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gccattgcttggaatgctaccgcattgccgttctaatcatactatttattcatagGCTGGTTTTGCTGATCCAAACTTGCCAGTCGCGATAGTTCGTCCTGCAGATTTTGAGGATGCAGCTAAGCAAGCATGCCAAACAAAACTTGAGAATGCCA
                              ttctaat  putative branch site (score: 2)
                                            tttattc  putative PPT
                                 taatcatactatttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatttactattttattttattcaaccttggagcgagtgtttatagccattgcttggaatgctaccgcattgccgttctaatcatactatttattcatagGCTGGTTTTGCTGATCCAAACTTGCCAGTCGCGATAGTTCGTCCTGCAGATTTTGAGGATGCAGCTAAGCAAGCATGCCAAACAAAACTTGAGAATGCCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG