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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattttcttggctctgtaagaaccaaaatctcacttgtagtttgtttatttccagtagccctttttgattttttttaaatattcacctgtctgctttgtttatagCCATGCCGGAACTGTTGTCCTCGGCAAAATCAGCTGTAGTGAAGGGACAATCACAAGGTCGTGATGAGACTTATGTGAAACAGCTTTCTGATTATATAAT

Basic information

species Glycine max
transcript GLYMA19G29010.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G29010.1 (Glycine max), 3'ss of exon 9
lower sequence: PP1S207_33V6.1 (Physcomitrella patens), 3'ss of exon 9
-----------------------------------------------------------------------------gtattttcttggctctgtaagaaccaaaatct-cacttg--tagtttgtttatttccagtagccctttttgattttttttaaatattcacct-------gtctgctttgtttatagCCATGCCGGAACTGTTGTCCTCGGCAAAATCAGCTGTAGTGAAGGGACAATCACAAGGTCGTGATGAGACTTATGTGAAACAGCTTTCTGATTATATAAT
                                                                                ||    |   ||||||     |    | |  || ||   |  |  ||   ||     | |  || |||  ||   |||    | ||| |        |    | ||| |  ||||||||| || ||  ||   || |  |||   ||||| | |||||||||| |||  |||||||||||| ||||||||||||||||| | || || || ||
gttagtgcttcctcctcgggcgatgtgatttgagatttccgtaccgttttacggactcgactttcagacaatttcttccgttacagttcttctgtagactgctgtttttgtacctggtcaactatttcgattttctcaacgtttcttgtgttcccttagtcttacacatctaacgcataccttctgtcttcagCCATGCCTGAGCTCCTGCGTTCTGGTAAACTTGCTGTGGAGAAGGGACAAGCACCTGGTCGTGATGAGTCTTATGTGAAACAGCTTGCAGACTACATTAT
















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|20449243|gb|BQ253367.1|BQ253367
EST:     AGCAGTTTCAG                         CCATGCCGGAACTGTTGTCCTCGGCAAAATCAGCTGTAGTGAAGGGACAAT
genomic: AGCAGTTTCAGgtattttctt ... ttgtttatagCCATGCCGGAACTGTTGTCCTCGGCAAAATCAGCTGTAGTGAAGGGACAAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccagtagccctttttgattttttttaaatattcacctgtctgctttgtttatagCCATGCCGGAACTGTTGTCCTCGGCAAAATCAGCTGTAGTGAAGGGACAATCACAAGGTCGTGATGAGACTTATGTGAAACAGCTTTCTGATTATATAAT
            ttttgat  putative branch site (score: 4)
                                       tctgcttt  putative PPT
           tttttgatttttttta  TA-rich tract