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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtttggtatttatgataaactatgttttctgactttatttgttcgagctattgtgctaatgtccctacgttaaatggccaatactatttttctttctcagGTTCTCATTATGAAAATGCTGGAACATCCTAATATAGTCAATCTCATTGAGGTGATTGATGACCCAGAGACGGACAACTTCTACATGG

Basic information

species Glycine max
transcript GLYMA12G07340.3
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G07340.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os03g50330.1 (Oryza sativa), 3'ss of exon 5
--gtttggtatttatgataaactatgttttctgactttatttgttcgagctattgtgctaatgtccctacgttaaatggccaatactatttttctt--tctcagGTTCTCATTATGAAAATGCTGGAACATCCTAATATAGTCAATCTCATTGAGGTGATTGATGACCCAGAGACGGACAACTTCTACATGG
   |    ||  |   ||||||| || || || |    || | |  |  || ||    ||| ||| | |   |       ||  ||  ||| | ||  |  |||||   ||| ||||||||| |||| |||||||||||||| ||||||||||| ||||||||||||||| |  | || || ||||||||||
caataaaataactggaataaactttgcttgcttaaagaatctctatgtactgtt----taacgtctcaattatctgacagcatcaccttttgtattggtgacagGTATCCATCATGAAAATGTTGGATCATCCTAATATAGTAAATCTCATTGAAGTGATTGATGACCCAAATGCAGATAAATTCTACATGG

upper sequence: GLYMA12G07340.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G057084_T04 (Zea mays), 3'ss of exon 6
------gtttggtatttatgataaactatgttttctgactttatttgttcgagctattgtgctaatgtccctacgttaaatggccaatactatttttctttct----cagGTTCTCATTATGAAAATGCTGGAACATCCTAATATAGTCAATCTCATTGAGGTGATTGATGACCCAGAGACGGACAACTTCTACATGG
       |||   || | | |||   |   |||||||       ||||      ||||    |  |  |||| | |||  | |   ||| | |||||  || |    |||||   ||| |||||||||||| | || ||||| || ||||||||  |||| ||||||||||||||| | |  || || ||||||||||
atcctgattttacatat-taatagggtgcattttctg-------ttgtgtacagtatttaattgcttgccctccttta--ttgttcatatttttttttcttttgagacagGTGTCCATAATGAAAATGCTGAATCACCCTAACATTGTCAATCTTGTTGAAGTGATTGATGACCCAAACATAGATAAATTCTACATGG

upper sequence: GLYMA12G07340.1 (Glycine max), 3'ss of exon 6
lower sequence: AT5G60550.1 (Arabidopsis thaliana), 3'ss of exon 6
gtttggtatttatgataaactatgttttctga-ctttatttgttcgagctattgtgctaatgtccctacgttaaatggccaatactatttttctttctcagGTTCTCATTATGAAAATGCTGGAACATCCTAATATAGTCAATCTCATTGAGGTGATTGATGACCCAGAGACGGACAACTTCTACATGG
     ||||   |  |    |    || |||| |   |||| |    | | |  |  ||  |    || ||| |   ||  ||      | |   |  |||||| | |||||||||||  |||| |||||||| || || || |||||||||||||| |||||||| || || ||  | || |||||||
-----gtatccttagtttttttgcattgctgaacagcatttctattggtt-tcattttagagaagttatgtttat--gctcatttatcctataacttacagGTTATGATTATGAAAATTTTGGAGCATCCTAACATCGTTAACCTCATTGAGGTGATAGATGACCCTGAAACTGATCATTTTTACATGG

upper sequence: GLYMA12G07340.1 (Glycine max), 3'ss of exon 6
lower sequence: AT3G45240.3 (Arabidopsis thaliana), 3'ss of exon 6
-----gtttggtatttatgataaactatgttttctgactttatttgttcgagctattgtgctaat-gtccctacgtt-----------aaatggccaatactatttttctttctca--------gGTTCTCATTATGAAAATGCTGGAACATCCTAATATAGTCAATCTCATTGAGGTGATTGATGACCCAGAGACGGACAACTTCTACATGG
      |||   |   |   | |||||    | |  | ||   || ||| || ||   |||  || | |  || |||           || |     | |   ||||| | |||||        |||| | ||||||||||  ||||| ||||||||||| || |||||||||||||||||||||||||| |||   ||  | || |||||||
gtatcatttctgaacaacatttaacta-acgtcccaagttggctttttccag-tacaatgcagatagactttaggtttcatttcagaaaacttatgtacatgttttttgtatctcatcgttgtagGTTATGATTATGAAAACCCTGGAGCATCCTAATATCGTTAATCTCATTGAGGTGATTGATGACCCTGAGTTTGATGATTTTTACATGG

upper sequence: GLYMA12G07340.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv06s0004g02990.t01 (Vitis vinifera), 3'ss of exon 6
-----gtttggtatttatgataaactatgttttctgactttatttgttcgagctattgtgctaatgtccctacgttaaatggccaatactatttttctttctcagGTTCTCATTATGAAAATGCTGGAACATCCTAATATAGTCAATCTCATTGAGGTGATTGATGACCCAGAGACGGACAACTTCTACATGG
       || || | |  | | ||  |   ||| | |    ||       |  |  |    | |||    |   | || |     |||   |||   ||    ||||| | || ||||||||| || | ||||| ||||||||||||||||||||||||||||||||||||   || ||  ||||||| ||||
gtttttcttcgtttattgggtgaatgacactttttaatgacatcatcaacaagttctaccttgatgaaggt---tcaatttattcatatcctttgcgttgt--agGTTTTGATCATGAAAATGTTGAACCATCCAAATATAGTCAATCTCATTGAGGTGATTGATGACCCAAGCACAGATCACTTCTATATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agctattgtgctaatgtccctacgttaaatggccaatactatttttctttctcagGTTCTCATTATGAAAATGCTGGAACATCCTAATATAGTCAATCTCATTGAGGTGATTGATGACCCAGAGACGGACAACTTCTACATGG
        tgctaat  putative branch site (score: 2)
                                    tactatttttctttct  putative PPT
                                  aatactatttttcttt  TA-rich tract