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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcgtattcctgttctctcttatccacacacagtggaaattctataccttttttccttgtagagttcagtttcttacttatttggcattatgtcttttttcagGCAAAACTAGTGGCCTTAATAGCTTTGGCCTTATGTGGTGCAATG

Basic information

species Glycine max
transcript GLYMA06G07120.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G07120.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G020976_T01 (Zea mays), 3'ss of exon 5
gtcgtattcctgttctctcttatccacacacagtggaaattctataccttttttccttgtagagttcagtttcttacttatttggcattatgtcttttttc--agGCAAAACTAGTGGCCTTAATAGCTTTGGCCTTATGTGGTGCAATG
   |||    |  | ||| ||  | ||| | | ||              || ||||  ||    | ||   |||| || ||| |   || | | | ||  |  ||| ||| ||||||||||||||||||||||||| |||||||||||||
---gtaaaagtagtttctttttccaacatataatg--------------ttcttccacgt----tacaaaatctttctgattagatgttctttttcttcccatagGAAAATCTAGTGGCCTTAATAGCTTTGGCCTGATGTGGTGCAATG

upper sequence: GLYMA06G07120.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G133226_T04 (Zea mays), 3'ss of exon 5
gtcgtattcctgttctctcttatccacacacagtggaaattctataccttttttccttgtagagttcagtttcttacttatttggcattatgtctttttt-cagGCAAAACTAGTGGCCTTAATAGCTTTGGCCTTATGTGGTGCAATG
   |||   | ||||  | ||  | ||| | ||||             || |||| | |||     ||   |||| || ||  |   || | | | ||    ||| ||| |||||||||| |||||||||||||| |||||||||||||
---gtaaagcagttccttttt-ccaacatatagtg-------------ttctttcatcgta-----caaaatctttctgatcagatgttctttttcttccatagGAAAATCTAGTGGCCTCAATAGCTTTGGCCTGATGTGGTGCAATG

upper sequence: GLYMA06G07120.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G32272.2 (Arabidopsis thaliana), 3'ss of exon 6
gtcgtattcctgttctctcttatccacacacagtggaaattctataccttttttccttgtagagttcagtttcttacttatttggcatta-tgtct--tttttcagGCAAAACTAGTGGCCTTAATAGCTTTGGCCTTATGTGGTGCAATG
   |||  |  |||      | ||   | | | ||    ||   ||| | |  ||||   |||||  | | |||  ||||        || |||||  || | |||| ||| | |||||| | |||||||||||||||||||||| |||||
---gtacactagttactcgctctctgaataaattgt---tttactacatgtcctcctgccagagtgaaatctct--cttacccaattctaatgtctggttctccagGTAAATCAAGTGGCTTGAATAGCTTTGGCCTTATGTGGTCCAATG

upper sequence: GLYMA06G07120.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv04s0008g05570.t01 (Vitis vinifera), 3'ss of exon 5
gtcgtattcctgttctctcttatccacacacagtggaaattctataccttttttccttgtagagttcagtttcttacttatttggcattatgt-cttttttcagGCAAAACTAGTGGCCTTAATAGCTTTGGCCTTATGTGGTGCAATG
|| | ||| |  || |   ||        | |    ||| |    |     | ||  |    || |   |||||| ||||  ||    ||| | ||||| ||||| ||| ||||||||||||||||||||||||| |||||||| ||||
gtagaatttccatttttattttattttttaaa----aaacttccaatgacatctcagt----agcttgatttctttcttagatgctgatattttcttttctcagGGAAATCTAGTGGCCTTAATAGCTTTGGCCTAATGTGGTGTAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttttccttgtagagttcagtttcttacttatttggcattatgtcttttttcagGCAAAACTAGTGGCCTTAATAGCTTTGGCCTTATGTGGTGCAATG
                      ttcttac  putative branch site (score: 2)
                                       ttatgtcttttttc  putative PPT
                     tttcttacttattt  TA-rich tract