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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgttctcaataatttgttgagcgaccatagaactgcttgatgtaatttctttcctttgataattgattaacttacaaactggcagaggttgtgcaagaaacaattcaagtcatctctgcaatacttttttagtgaattcttatgatatttcacttttaacagCTGGATAGCAGCTCTGATCATCAAGAGAAACTTCCTGTTGGCACCAAAGTTCAGGCAGTTTGGAGTGAAGATGGGGAGTG

Basic information

species Glycine max
transcript GLYMA07G40240.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G40240.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv12s0035g01830.t01 (Vitis vinifera), 3'ss of exon 4
gtacgttctcaataatttgttgagcgaccatagaactgcttgatgtaatttctttcctttgataattgattaacttacaaactg-gcagaggttgtgcaagaaacaattcaagtcatctctgcaatacttttttagtgaattct-tatgatatttcacttttaacagCTGGATAGCAGCTCTGATCATCAAGAGAAACTTCCTGTTGGCACCAAAGTTCAGGCAGTTTGGAGTGAAGATGGGGAGTG
                                                               |||  |  || ||||| | |    | |  |  |  |  | | ||| |      |||||     |||   | | |   || | | | ||  || ||   ||  |||  |  | || |||||||||| | |  ||| | ||| ||||||| |||||||| ||||||||||||||||||||||| ||
---------------------------------------------------------------aataaaaaaatttacatatttcatatatataatatataata-aatactctctctctctctctcactcactcatttttttttattttattgtttacaaatagGAGCCAGGAAACAACTCTGATCATTACGGAAAATTCCCTATTGGCACAAAAGTTCAAGCAGTTTGGAGTGAAGATGGGGAATG
















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|298191400|gb|HO038879.1|HO038879
EST:     ACGCTGCTGCTGCCTCTCCAACCTTGTCCATACATAATGACAATCAAGTG                         CTGGATAGCAGCTCTGATCATCAAGAGAAACTTCCTGTTGGCACCAAAGTT
genomic: ACGCTGCTGCTGCCTCTCCAACCTTGTCCATACATAATGACAATCAAGTGgtacgttctc ... cttttaacagCTGGATAGCAGCTCTGATCATCAAGAGAAACTTCCTGTTGGCACCAAAGTT
EST: gi|298168743|gb|HO009673.1|HO009673
EST:     ACGCTGCTGCTGCCTCTCCAACCTTGTCCATACATAATGACAATCAAGTG                         CTGGATAGCAGCTCTGATCATCAAGAGAAACTTCCTGTTGGCACCAAAGTT
genomic: ACGCTGCTGCTGCCTCTCCAACCTTGTCCATACATAATGACAATCAAGTGgtacgttctc ... cttttaacagCTGGATAGCAGCTCTGATCATCAAGAGAAACTTCCTGTTGGCACCAAAGTT
EST: gi|8669105|gb|BE190212.1|BE190212
EST:     ACGCTGCTGCTGCCTCTCCAACCTTGTCCATACATAATGACAATCAAGTG                         CTGGATAGCAGCTCTGATCATCAAGAGAAACTTCCTGTTGGCACCAAAGTT
genomic: ACGCTGCTGCTGCCTCTCCAACCTTGTCCATACATAATGACAATCAAGTGgtacgttctc ... cttttaacagCTGGATAGCAGCTCTGATCATCAAGAGAAACTTCCTGTTGGCACCAAAGTT
EST: gi|298172500|gb|HO019540.1|HO019540
EST:     ACGCTGCTGCTGTCTCTCCAACCTTGTCCATACATAATGACAATCAAGTG                         CTGGATAGCAGCTCTGATCATCAAGAGAAACTTCCTGTTGGCACCAAAGTT
genomic: ACGCTGCTGCTGCCTCTCCAACCTTGTCCATACATAATGACAATCAAGTGgtacgttctc ... cttttaacagCTGGATAGCAGCTCTGATCATCAAGAGAAACTTCCTGTTGGCACCAAAGTT
EST: gi|9820674|gb|BE556184.1|BE556184
EST:     ACGCTGCTGCTGCCTCTCCAACCTTGTCCATACATAATGACAATCAAGTG                         CTGGATAGCAGCTCTGATCATCAAGAGAAACTTCCTGTTGGCACCAAAGTT
genomic: ACGCTGCTGCTGCCTCTCCAACCTTGTCCATACATAATGACAATCAAGTGgtacgttctc ... cttttaacagCTGGATAGCAGCTCTGATCATCAAGAGAAACTTCCTGTTGGCACCAAAGTT
EST: gi|21675141|gb|BQ627501.1|BQ627501
EST:     ACGCTGCTGCTGCCTCTCCAACCTTGTCCATACATAATGACAATCAAGTG                         CTGGATAGCAGCTCTGATCATCAAGAGAAACTTCCTGTTGGCACCAAAGTT
genomic: ACGCTGCTGCTGCCTCTCCAACCTTGTCCATACATAATGACAATCAAGTGgtacgttctc ... cttttaacagCTGGATAGCAGCTCTGATCATCAAGAGAAACTTCCTGTTGGCACCAAAGTT
EST: gi|151393165|gb|EV263040.1|EV263040
EST:     ACGCTGCTGCTGCCTCTCCAACCTTGTCCATACATAATGACAATCAAGTG                         CTGGATAGCAGCTCTGATCATCAAGAGAAACTTCCTGTTGGCACCAAAGTT
genomic: ACGCTGCTGCTGCCTCTCCAACCTTGTCCATACATAATGACAATCAAGTGgtacgttctc ... cttttaacagCTGGATAGCAGCTCTGATCATCAAGAGAAACTTCCTGTTGGCACCAAAGTT
EST: gi|37995015|gb|CF806604.1|CF806604
EST:     ACGCTGCTGCTGCCTCTCCAACCTTGTCCATACATAATGACAATCAAGTG                         CTGGATAGCAGCTCTGATCATCAAGAGAAACTTCCTGTTGGCACCAAAGTT
genomic: ACGCTGCTGCTGCCTCTCCAACCTTGTCCATACATAATGACAATCAAGTGgtacgttctc ... cttttaacagCTGGATAGCAGCTCTGATCATCAAGAGAAACTTCCTGTTGGCACCAAAGTT
EST: gi|192331101|gb|FK020321.1|FK020321
EST:     ACGCTGCTGCTGCCTCTCCAACCTTGTCCATACATAATGACAATCAAGTG                         CTGGATAGCAGCTCTGAACATCAAGAGAAACTTCCTGTTGGCACCAAAGTT
genomic: ACGCTGCTGCTGCCTCTCCAACCTTGTCCATACATAATGACAATCAAGTGgtacgttctc ... cttttaacagCTGGATAGCAGCTCTGATCATCAAGAGAAACTTCCTGTTGGCACCAAAGTT
EST: gi|9564643|gb|BE474152.1|BE474152
EST:     ACGCTGCTGCTGCCTCTCCAACCTTGTCCATACATAATGACAATCAAGTG                         CTGGATAGCAGCTCTGATCATCAAGAGAAACTTCCTGTTGGCACCAAAGTT
genomic: ACGCTGCTGCTGCCTCTCCAACCTTGTCCATACATAATGACAATCAAGTGgtacgttctc ... cttttaacagCTGGATAGCAGCTCTGATCATCAAGAGAAACTTCCTGTTGGCACCAAAGTT
EST: gi|192334366|gb|FK025543.1|FK025543
EST:     ACGCTGCTGCTGCCTCTCCAACCTTGTCCATACATAATGACAATCAAGTG                         CTGGATAGCAGCTCTGATCATCAAGAGAAACTTCCTGTTGGCACCAAAGTT
genomic: ACGCTGCTGCTGCCTCTCCAACCTTGTCCATACATAATGACAATCAAGTGgtacgttctc ... cttttaacagCTGGATAGCAGCTCTGATCATCAAGAGAAACTTCCTGTTGGCACCAAAGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtcatctctgcaatacttttttagtgaattcttatgatatttcacttttaacagCTGGATAGCAGCTCTGATCATCAAGAGAAACTTCCTGTTGGCACCAAAGTTCAGGCAGTTTGGAGTGAAGATGGGGAGTG
                                        tttcactttt  CT-rich tract
                           aattcttatgatattt  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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacgttctcaataatttgttgagcgaccatagaactgcttgatgtaatttctttcctttgataattgattaacttacaaactggcagaggttgtgcaagaaacaattcaagtcatctctgcaatacttttttagtgaattcttatgatatttcacttttaacagCTGGATAGCAGCTCTGATCATCAAGAGAAACTTCCTGTTGGCACCAAAGTTCAGGCAGTTTGGAGTGAAGATGGGGAGTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG