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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACATTGAGAAAGAAGTCAGAAAAGAAGTTGACGAAGCCATTGCTAAAGCAAAGgtgaaaaacataccttttttttttttctgtttttactcttaccttaaaacttgtgtttgtataccttacatttgcatatcctgtaatgactgaatatcgtttacaattggagttttgcgttcatttctattttccag

Basic information

species Glycine max
transcript GLYMA02G03080.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G03080.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os02g50620.1 (Oryza sativa), 5'ss of exon 6
GACATTGAGAAAGAAGTCAGAAAAGAAGTTGACGAAGCCATTGCTAAAGCAAAGgtgaaaaacataccttttttttttttctgtttttactcttaccttaaaacttgtgtttgtataccttacatttgcatatcctgtaatgactgaatatcgtttacaattggagttttgcgttcatttctattttccag
||||| ||||||||| ||||||||||||| || || |||||||| |||||||||||         |  ||  || ||||| | ||| |   |||   ||    |||    ||  ||   || || |  ||||| |        ||   ||   ||| ||                                
GACATGGAGAAAGAAATCAGAAAAGAAGTCGATGATGCCATTGCGAAAGCAAAGgttcttgctgcattttgcttctttttttttttgtttacttgttttg---ctttgaattagat---tttcactcacatataccc------ctttttaatatttgcag-------------------------------
















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

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
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GACATTGAGAAAGAAGTCAGAAAAGAAGTTGACGAAGCCATTGCTAAAGCAAAGgtgaaaaacataccttttttttttttctgtttttactcttaccttaaaacttgtgtttgtataccttacatttgcatatcctgtaatgactgaatatcgtttacaattggagttttgcgttcatttctattttccag

- - - -  AAAGAA
- - - - - AAGAAG
- - - - -  AGAAGT
- - - - - - - - - -  AAAGAA
- - - - - - - - - - - AAGAAG
- - - - - - - - - - -  AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - GCAAAG