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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtgttttaaagaaagttctccctctaccattcttcccaaagttgattttggcctcatacatgatgctgttttcctgttaaaattattattctccatacagGTAGCTCGAGGTGATAAGAGTGGAGAAGATGGTATCCCCATGCTTCTCAAGATACCACGTCTATTTGATCCTTGGGGTGGTTACAGTATCATCGGATTTG

Basic information

species Glycine max
transcript GLYMA03G01100.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G01100.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv15s0046g02460.t01 (Vitis vinifera), 3'ss of exon 10
----gtgagtgttttaaagaaagttctccctctaccattcttcccaaagttgattttggcctcatacatgatgctgttttcctgtta--aaattat-------tattctccatacagGTAGCTCGAGGTGATAAGAGTGGAGAAGATGGTATCCCCATGCTTCTCAAGATACCACGTCTATTTGATCCTTGGGGTGGTTACAGTATCATCGGATTTG
    ||   |  |  |||    |||  ||| | |  |   ||   |  | |||| || |   | |  |     ||| |  ||  |||   ||||||       | || ||  || |||||||||| ||||||| |||||| || |||||||| || ||||| || ||||| || ||  | ||||||||||||||||| ||||| ||||| |||||||
gtaagtagtttctccaaaacttgttagcccaccaatacatttgaaacggctgatgtttggtacttg-agatctctgctgcccaattacagaattatgtaattgtgttttctgtatagGTAGCTCGTGGTGATAGGAGTGGGGAGGATGGTATTCCGATGCTACTGAAGATCCCGCGAATGTTTGATCCTTGGGGTGGCTACAGCATCATTGGATTTG

upper sequence: GLYMA03G01100.1 (Glycine max), 3'ss of exon 10
lower sequence: PP1S124_16V6.1 (Physcomitrella patens), 3'ss of exon 10
----------------------------------------------------------------------------gtgagtgttttaaagaaagttctccctct-accatt-----cttcccaaagttgattttggcctcata-catgatgctgttttcctgttaaaattattattctccat-acagGTAGCTCGAGGTGATAAGAGTGGAGAAGATGGTATCCCCATGCTTCTCAAGATACCACGTCTATTTGATCCTTGGGGTGGTTACAGTATCATCGGATTTG
                                                                             |||||| ||| |  || ||  ||  | | | || |     ||  | |  | |   || ||  ||| |  |      || |    | | |  |||    || ||    |||||| ||||| || |||||||     | ||| ||||| || |||||||| ||  | |||||||| |||||||| |||||||| ||||||||||| || ||||
gtatgttcatcaatctggcttttcctatttaagacgcgcgtttttgaaattgtttcgacttctaggttgtgaactattgagtgctttgacaaatgtcgtctttttcatcacttcaagctgacgatcggtagcttgggtatcacaatacacaagtgctgagatatgacgattgaacttttctgggacagGTTGCTCGGGGAGATAAGACCAATGGAGAGGGTATTCCTATGCTTCTTAAAGTTCCACGTCTTTTTGATCCATGGGGTGGCTACAGTATCATTGGTTTTG
















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|26059236|gb|CA802150.1|CA802150
EST:     TTTGGGTGTTTGTCTCTAAACGGTGGTTCCATGAGAGTGTGATGATAGTG                         GTAGCTCGAGGTGATAAGAGTGGAGAAGATGGTATCCCCATGCTTCTCAAG
genomic: TTTGGGTGTTTGTCTCTAAACGGTGGTTCCATGAGAGTGTGATGATAGTGgtgagtgttt ... ctccatacagGTAGCTCGAGGTGATAAGAGTGGAGAAGATGGTATCCCCATGCTTCTCAAG
EST: gi|151409520|gb|EV279328.1|EV279328
EST:     TTTGGGTGTTTGTCTCTAAACGGTGGTTCCATGAGAGTGTGATGATAGTG                         GTAGCTCGAGGTGATAAGAGTGGAGAAGATGGTATCCCCATGCTTCTCAAG
genomic: TTTGGGTGTTTGTCTCTAAACGGTGGTTCCATGAGAGTGTGATGATAGTGgtgagtgttt ... ctccatacagGTAGCTCGAGGTGATAAGAGTGGAGAAGATGGTATCCCCATGCTTCTCAAG
EST: gi|254319501|gb|GR829013.1|GR829013
EST:     TTTGGGTGTTTGTCTCTAAACGGTGGTTCCATGAGAGTGTGATGATAGTG                         GTAGCTCGAGGTGATAAGAGTGGAGAAGATGGTATCCCCATGCTTCTCAAG
genomic: TTTGGGTGTTTGTCTCTAAACGGTGGTTCCATGAGAGTGTGATGATAGTGgtgagtgttt ... ctccatacagGTAGCTCGAGGTGATAAGAGTGGAGAAGATGGTATCCCCATGCTTCTCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttggcctcatacatgatgctgttttcctgttaaaattattattctccatacagGTAGCTCGAGGTGATAAGAGTGGAGAAGATGGTATCCCCATGCTTCTCAAGATACCACGTCTATTTGATCCTTGGGGTGGTTACAGTATCATCGGATTTG
                                        ttattctcc  CT-rich tract
                       ttttcctgttaaaatt  TA-rich tract