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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttgctgttaattgttcctcattgtatgtgcctgtggattcctgtgacatatgggaaatttatgttgtagtttcaacttttagGGCCTCAAGAACTTTACAAAGTCTGCTCGGGATCTCATTATGCGGTTACAAAAGATTGATGGTGACAATTACCCTGAG

Basic information

species Glycine max
transcript GLYMA12G04460.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G04460.1 (Glycine max), 3'ss of exon 4
lower sequence: AT2G21520.1 (Arabidopsis thaliana), 3'ss of exon 3
gtatgttgctgttaattgttcctcattgtatgtgcctg-tggattcctgtgacatatgggaaatttatgttgtagtttcaacttttagGGCCTCAAGAACTTTACAAAGTCTGCTCGGGATCTCATTATGCGGTTACAAAAGATTGATGGTGACAATTACCCTGAG
||| ||   | |  |  |||| | ||  ||  ||     ||  ||  | |  ||| ||     ||||| |   |  ||||   || ||||  | || |||||||  ||||||||||| ||||| || |  || ||||||||||||||||| |||||||| ||||||
gtaagt-attttctacagttcatgatattagttgtgaaatgagtttttttctcatgtg-----tttatat---aacttca-tattcagGGATTGAAAAACTTTAACAAGTCTGCTCGAGATCTTATCACACGATTACAAAAGATTGATGGAGACAATTATCCTGAG

upper sequence: GLYMA12G04460.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv03s0038g04470.t01 (Vitis vinifera), 3'ss of exon 5
-------gtatgttgctgttaattgttcctcattgtatg-tgcctgtggattcctgtgacatatgggaaatt-tatgttgtagtt-------tcaactttt-agGGCCTCAAGAACTTTACAAAGTCTGCTCGGGATCTCATTATGCGGTTACAAAAGATTGATGGTGACAATTACCCTGAG
        | |||   | ||  ||| ||  ||||| |   |   | | |   |     | || |   || || | | || || ||       |||| |||  ||||  | |||||| | |||||| |||| |||||||||||||||||| | || ||||||||||| || ||||||||||||
gtatgctttctgtaattttttcttggtcaccattgcaaaatatattttggcccaatcaaaatgtttaaacttatcttttctatttctgatcatcaattttccagGGTTTTAAGAACCTAACAAAGGCTGCACGGGATCTCATTATGCGGCTGCAGAAGATTGATGGGGATAATTACCCTGAG
















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|193724403|gb|FK657985.1|FK657985
EST:     CCAAAAGACACATTGATTCAAGCACCACGATACTAGATGTTCAAGGCGTG                         GGCCTCAAGAACTTTACAAAGTCTGCTCGGGATCTCATTATGCGGTTACAA
genomic: CCAAAAGACACATTGATTCAAGCACCACGATACTAGATGTTCAAGGCGTGgtatgttgct ... caacttttagGGCCTCAAGAACTTTACAAAGTCTGCTCGGGATCTCATTATGCGGTTACAA
EST: gi|193320737|gb|FK283122.1|FK283122
EST:     CCAAAAGACACATTGATTCAAGCACCACGATACTAGATGTTCAAGGCGTG                         GGCCTCAAGAACTTTACAAAGTCTGCTCGGGATCTCATTATGCGGTTACAA
genomic: CCAAAAGACACATTGATTCAAGCACCACGATACTAGATGTTCAAGGCGTGgtatgttgct ... caacttttagGGCCTCAAGAACTTTACAAAGTCTGCTCGGGATCTCATTATGCGGTTACAA
EST: gi|193481751|gb|FK446870.1|FK446870
EST:     CACGATACTAGATGTTCAAGGCGTG                         GGCCTCAAGAACTTTACAAAGTCTGCTCGGGATCTCATTATGCGGTTACAA
genomic: CACGATACTAGATGTTCAAGGCGTGgtatgttgct ... caacttttagGGCCTCAAGAACTTTACAAAGTCTGCTCGGGATCTCATTATGCGGTTACAA
EST: gi|151397966|gb|EV267839.1|EV267839
EST:     CCAAAAGACACATTGATTCAAGCACCACGATACTAGATGTTCAAGGCGTG                         GGCCTCAAGAACTTTACAAAGTCTGCTCGGGATCTCATTATGCGGTTACAA
genomic: CCAAAAGACACATTGATTCAAGCACCACGATACTAGATGTTCAAGGCGTGgtatgttgct ... caacttttagGGCCTCAAGAACTTTACAAAGTCTGCTCGGGATCTCATTATGCGGTTACAA
EST: gi|207760411|gb|GD731382.1|GD731382
EST:     CCAAAAGACACATTGATTCAAGCACCACGATACTAGATGTTCAAGGCGTG                         GGCCTCAAGAACTTTACAAAGTCTGCTCGGGATCTCATTATGCGGTTACAA
genomic: CCAAAAGACACATTGATTCAAGCACCACGATACTAGATGTTCAAGGCGTGgtatgttgct ... caacttttagGGCCTCAAGAACTTTACAAAGTCTGCTCGGGATCTCATTATGCGGTTACAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcctgtggattcctgtgacatatgggaaatttatgttgtagtttcaacttttagGGCCTCAAGAACTTTACAAAGTCTGCTCGGGATCTCATTATGCGGTTACAAAAGATTGATGGTGACAATTACCCTGAG
                                                ctttt  CT-rich tract
                           aaatttatgttgta  TA-rich tract