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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaaaaacataccttttttttttttctgtttttactcttaccttaaaacttgtgtttgtataccttacatttgcatatcctgtaatgactgaatatcgtttacaattggagttttgcgttcatttctattttccagGAGAGTCCAATGCCAGATCCATCTGATCTATTTACCAATGTCTATGTTAAAGGTTACGGAGTTGAG

Basic information

species Glycine max
transcript GLYMA02G03080.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G03080.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os06g13720.1 (Oryza sativa), 3'ss of exon 6
gtgaaaaacataccttttttttttttctgtttttactcttaccttaaaacttgtgtttgtataccttacatttgcatatcctgtaatgactgaatatcgtttacaattggagttttgcgttcatttctattttccagGAGAGTCCAATGCCAGATCCATCTGATCTATTTACCAATGTCTATGTTAAAGGTTACGGAGTTGAG
                                            |   | |||   || ||||  |     |   | ||  |    | | |  | |    ||    ||     |    |  | || | ||  | ||||| ||||||||||| ||||||||||| || ||||| ||||| |||||||| |  | |||  | |||
-------------------------------------------gtctgaattgcagttatatatgtc---ctcaaaaatgtttcgttcattcga-actacttgtgcttatgaatcatggcacgtt-caatactgcagGAAAGTCCAATGCCCGATCCATCTGAGCTCTTTACAAATGTATATGTTAATGACTGCGGTTTGGAG

upper sequence: GLYMA02G03080.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv09s0018g01940.t01 (Vitis vinifera), 3'ss of exon 6
gtgaaaaacataccttttttttttttctgtttttactcttaccttaaaa----------cttgtgtttgtatacctta-------catttgcatatcctgtaa----tgactgaatatcgtttacaattggagttttgcgttcatttctatttt-ccagGAGAGTCCAATGCCAGATCCATCTGATCTATTTACCAATGTCTATGTTAAAGGTTACGGAGTTGAG
|| || || |||   || | ||  |  || || | || |  |  ||  |          ||  ||     ||||  ||       || |||  |    | ||     ||     ||  | | | || ||      ||   |   ||||| |||| |||||| ||||||||||||||||| ||||| || || ||||| || ||||| |||||||  ||  |||||
gt-aagaagatattgttatgttaatcttgattgttctgtagctctagtaaaagaacttcctcctgcccacatactataactagcacagttgtgtcctttttagactttgttcatatgccttatgcacttatgccctttgctgtttttctgttttaccagGAAAGTCCAATGCCAGATCCTTCTGAACTCTTCACCAACGTATATGTGAAAGGTTTTGGGATTGAG
















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|9901166|gb|BE610134.1|BE610134
EST:     TTGAGAAAGAAGTCAGAAAAGAAGTTGACGAAGCCATTGCTAATGCAAAG                         GAGAGTCCAATGCCAGATCCATCTGATCTATTTACCAATGTCTATGTTAAA
genomic: TTGAGAAAGAAGTCAGAAAAGAAGTTGACGAAGCCATTGCTAAAGCAAAGgtgaaaaaca ... tattttccagGAGAGTCCAATGCCAGATCCATCTGATCTATTTACCAATGTCTATGTTAAA
EST: gi|9820676|gb|BE556186.1|BE556186
EST:     TTGAGAAAGAAGTCATAAGAGAAGTTGACGAAGCCATTGCTAAAGCAAAG                         GAGAGTCCAATGCCAGATCCATCTGATCTATTTACCAATGTCTATGTTAAA
genomic: TTGAGAAAGAAGTCAGAAAAGAAGTTGACGAAGCCATTGCTAAAGCAAAGgtgaaaaaca ... tattttccagGAGAGTCCAATGCCAGATCCATCTGATCTATTTACCAATGTCTATGTTAAA
EST: gi|51338002|gb|CO981868.1|CO981868
EST:     TTGAGAAAGAAGTCAGAAAAGAAGTTGACGAAGCCATTGCTAAAGCAAAG                         GAGAGTCCAATGCCAGATCCATCTGATCTATTTACCAATGTCTATGTTAAA
genomic: TTGAGAAAGAAGTCAGAAAAGAAGTTGACGAAGCCATTGCTAAAGCAAAGgtgaaaaaca ... tattttccagGAGAGTCCAATGCCAGATCCATCTGATCTATTTACCAATGTCTATGTTAAA
EST: gi|15664218|gb|BI701589.1|BI701589
EST:     TTGAGAAAGAAGTCAGAAAAGAAGTTGACGAAGCCATTGCTAAAGCAAAG                         GAGAGTCCAATGCCAGATCCATCTGATCTATTTACCAATGTCTATGTTAAA
genomic: TTGAGAAAGAAGTCAGAAAAGAAGTTGACGAAGCCATTGCTAAAGCAAAGgtgaaaaaca ... tattttccagGAGAGTCCAATGCCAGATCCATCTGATCTATTTACCAATGTCTATGTTAAA
EST: gi|151406873|gb|EV276688.1|EV276688
EST:     TTGAGAAAGAAGTCAGAAAAGAAGTTGACGAAGCCATTGCTAAAGCAAAG                         GAGAGTCCAATGCCAGATCCATCTGATCTATTTACCAATGTCTATGTTAAA
genomic: TTGAGAAAGAAGTCAGAAAAGAAGTTGACGAAGCCATTGCTAAAGCAAAGgtgaaaaaca ... tattttccagGAGAGTCCAATGCCAGATCCATCTGATCTATTTACCAATGTCTATGTTAAA
EST: gi|9819785|gb|BE555298.1|BE555298
EST:     TTGAGAAAGAAGTCAGAAAAGAAGTTGACGAAGCCATTGCTAAAGCAAAG                         GAGAGTCCAATGCCAGATCCATCTGATCTATTTACCAATGTCTATGTTAAA
genomic: TTGAGAAAGAAGTCAGAAAAGAAGTTGACGAAGCCATTGCTAAAGCAAAGgtgaaaaaca ... tattttccagGAGAGTCCAATGCCAGATCCATCTGATCTATTTACCAATGTCTATGTTAAA
EST: gi|58016185|gb|CX702927.1|CX702927
EST:     TTGAGAAAGAAGTCAGAAAAGAAGTTGACGAAGCCATTGCTAAAGCAAAG                         GAGAGTCCAATGCCAGATCCATCTGATCTATTTACCAATGTCTATGTTAAA
genomic: TTGAGAAAGAAGTCAGAAAAGAAGTTGACGAAGCCATTGCTAAAGCAAAGgtgaaaaaca ... tattttccagGAGAGTCCAATGCCAGATCCATCTGATCTATTTACCAATGTCTATGTTAAA
EST: gi|7233061|gb|AW568412.1|AW568412
EST:     AGTTGACGAAGCCATTGCTAAAGCAAAG                         GAGAGTCCAATGCCAGATCCATCTGATCTATTTACCAATGTCTATGTTAAA
genomic: AGTTGACGAAGCCATTGCTAAAGCAAAGgtgaaaaaca ... tattttccagGAGAGTCCAATGCCAGATCCATCTGATCTATTTACCAATGTCTATGTTAAA
EST: gi|15199292|gb|BI423757.1|BI423757
EST:     TTGAGAAAGAAGTCAGAAAAGAAGTTGACGAAGCCATTGCTAAAGCAAAG                         GAGAGTCCAATGCCAGATCCATCTGATCTATTTACCAATGTCTATGTTAAA
genomic: TTGAGAAAGAAGTCAGAAAAGAAGTTGACGAAGCCATTGCTAAAGCAAAGgtgaaaaaca ... tattttccagGAGAGTCCAATGCCAGATCCATCTGATCTATTTACCAATGTCTATGTTAAA
EST: gi|22540994|gb|BU090837.1|BU090837
EST:     TTGAGAAAGAAGTCAGAAAAGAAGTTGACGAAGCCATTGCTAAAGCAAAG                         GAGAGTCCAATGCCAGATCCATCTGATCTATTTACCAATGTCTATGTTAAA
genomic: TTGAGAAAGAAGTCAGAAAAGAAGTTGACGAAGCCATTGCTAAAGCAAAGgtgaaaaaca ... tattttccagGAGAGTCCAATGCCAGATCCATCTGATCTATTTACCAATGTCTATGTTAAA
EST: gi|13787399|gb|BG649991.1|BG649991
EST:     TTGAGAAAGAAGTCAGAAAAGAAGTTGACGAAGCCATTGCTAAAGCAAAG                         GAGAGTCCAATGCCAGATCCATCTGATCTATTTACCAATGTCTATGTTAAA
genomic: TTGAGAAAGAAGTCAGAAAAGAAGTTGACGAAGCCATTGCTAAAGCAAAGgtgaaaaaca ... tattttccagGAGAGTCCAATGCCAGATCCATCTGATCTATTTACCAATGTCTATGTTAAA
EST: gi|58019317|gb|CX706059.1|CX706059
EST:     TTGAGAAAGAAGTCAGAAAAGAAGTTGACGAAGCCATTGCTAAAGCAAAG                         GAGAGTCCAATGCCAGATCCATCTGATCTATTTACCAATGTCTATGTTAAA
genomic: TTGAGAAAGAAGTCAGAAAAGAAGTTGACGAAGCCATTGCTAAAGCAAAGgtgaaaaaca ... tattttccagGAGAGTCCAATGCCAGATCCATCTGATCTATTTACCAATGTCTATGTTAAA
EST: gi|151406023|gb|EV275838.1|EV275838
EST:     TTGAGAAAGAAGTCAGAAAAGAAGTTGACGAAGCCATTGCTAAAGCAAAG                         GAGAGTCCAATGCCAGATCCATCTGATCTATTTACCAATGTCTATGTTAAA
genomic: TTGAGAAAGAAGTCAGAAAAGAAGTTGACGAAGCCATTGCTAAAGCAAAGgtgaaaaaca ... tattttccagGAGAGTCCAATGCCAGATCCATCTGATCTATTTACCAATGTCTATGTTAAA
EST: gi|6666275|gb|AW277734.1|AW277734
EST:     TTGAGAAAGAAGTCAGAAAAGAAGTTGACGAAGCCATTGCTAAAGCAAAG                         GAGAGTCCAATGCCAGATCCATCTGATCTATTTACCAATGTCTATGTTAAA
genomic: TTGAGAAAGAAGTCAGAAAAGAAGTTGACGAAGCCATTGCTAAAGCAAAGgtgaaaaaca ... tattttccagGAGAGTCCAATGCCAGATCCATCTGATCTATTTACCAATGTCTATGTTAAA
EST: gi|27427278|gb|CA938798.1|CA938798
EST:     TTGAGAAAGAAGTCAGAAAAGAAGTTGACGAAGCCATTGCTAAAGCAAAG                         GAGAGTCCAATGCCAGATCCATCTGATCTATTTACCAATGTCTATGTTAAA
genomic: TTGAGAAAGAAGTCAGAAAAGAAGTTGACGAAGCCATTGCTAAAGCAAAGgtgaaaaaca ... tattttccagGAGAGTCCAATGCCAGATCCATCTGATCTATTTACCAATGTCTATGTTAAA
EST: gi|58016174|gb|CX702916.1|CX702916
EST:     TTGAGAAAGAAGTCAGAAAAGAAGTTGACGAAGCCATTGCTAAAGCAAAG                         GAGAGTCCAATGCCAGATCCATCTGATCTATTTACCAATGTCTATGTTAAA
genomic: TTGAGAAAGAAGTCAGAAAAGAAGTTGACGAAGCCATTGCTAAAGCAAAGgtgaaaaaca ... tattttccagGAGAGTCCAATGCCAGATCCATCTGATCTATTTACCAATGTCTATGTTAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaatgactgaatatcgtttacaattggagttttgcgttcatttctattttccagGAGAGTCCAATGCCAGATCCATCTGATCTATTTACCAATGTCTATGTTAAAGGTTACGGAGTTGAG
                                     ttcatttctattttcc  CT-rich tract
                                     ttcatttctatttt  TA-rich tract