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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaaaattctctgaaactcgacccaccacctttgtagtgtaaaaaattccaatgctaaccaatttatttctttggcagCTATTTTCTTTAAGTGCCATTCTGACTGTTTTCTTCTGCGGCATTGTTATGTCTCACTACACGTGGCATAATGTGACAGAGAGTTCAAGAGTGACAACCA

Basic information

species Glycine max
transcript GLYMA17G02560.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G02560.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os07g47100.2 (Oryza sativa), 3'ss of exon 8
gtaagaaaattctctgaaactcgacccaccacctt-tgtagtgtaaa---aaattccaatgctaaccaatttatttctttg------gcagCTATTTTCTTTAAGTGCCATTCTGACTGTTTTCTTCTGCGGCATTGTTATGTCTCACTACACGTGGCATAATGTGACAGAGAGTTCAAGAGTGACAACCA
||  |    | || |||  |   | | |        | |||| | |    | | |   ||  || | | ||| ||| ||||      |||| |  |   ||| || | |||||| || || |||||||| || ||||| ||||| || ||||| |||||||| || ||||||||||||||||| ||||| |
gtgtgcctctgctttgatgcagtatcaaaatttgcatatagtttcattttatagtttgattttatctactttgtttgtttgatattggcagTTGCTAGATTTGAGCGGCATTCTCACCGTATTCTTCTGTGGTATTGTAATGTCACATTACACTTGGCATAACGTCACAGAGAGTTCAAGAGTTACAACAA

upper sequence: GLYMA17G02560.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os11g42790.1 (Oryza sativa), 3'ss of exon 7
----------------------gtaagaaaattctctgaaactcgaccca--ccacct---ttgtagtgtaaaaaat--tccaatgctaaccaatttatttctttggcagCTATTTTCTTTAAGTGCCATTCTGACTGTTTTCTTCTGCGGCATTGTTATGTCTCACTACACGTGGCATAATGTGACAGAGAGTTCAAGAGTGACAACCA
                       | | | |  ||    | | | || | |   || ||   ||  | |||||   ||  ||  ||  |||||  ||| ||| | |||||| |  ||  ||| ||||  ||||| || || |||||||| || ||||| ||||| ||||| || ||||||||||| ||||||||||| || || |||||||
gtaagcaccctgtactattagcatcatatagatcctgcagatttgagcaatgtcagctaaatttaattgtaatggataatctgatattaacctgtttctttttgtggcagTTGCTTGATTTGAGTGGTATTCTTACGGTGTTCTTCTGTGGTATTGTAATGTCGCACTATACCTGGCATAATGTAACAGAGAGTTCCAGGGTCACAACCA

upper sequence: GLYMA17G02560.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G027851_T03 (Zea mays), 3'ss of exon 6
-----------gtaagaaaattctctgaaactcg-acccaccacctttgtagtgtaaaaaattccaatgctaaccaatttatttctttggcagCTATTTTCTTTAAGTGCCATTCTGACTGTTTTCTTCTGCGGCATTGTTATGTCTCACTACACGTGGCATAATGTGACAGAGAGTTCAAGAGTGACAACCA
            | |||     |   | || ||   |       |||  |    |||   | ||   || | |   || |||  | || ||||||  |   | | |||| |||||| || || |||||||||||||| || ||||| || ||||| ||||| |||||||||||||| |||||||| |||||||
gtgcacctctgatcagatgtggcaagggaattcacgcttgttgtcttactctcttaactgactc---tgttcat--atatatggcatttgcagCTGCTAGATCTGAGTGGCATTCTTACCGTATTCTTCTGCGGCATCGTGATGTCGCATTACACCTGGCACAATGTGACAGAGAGCTCAAGAGTCACAACCA

upper sequence: GLYMA17G02560.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G063492_T01 (Zea mays), 3'ss of exon 9
-----------gtaagaa--aattctctgaaactcgacccaccacctttgtagtgtaaaaaattccaatgctaa---ccaatttatttct----ttggcagCTATTTTCTTTAAGTGCCATTCTGACTGTTTTCTTCTGCGGCATTGTTATGTCTCACTACACGTGGCATAATGTGACAGAGAGTTCAAGAGTGACAACCA
           |||  |   | |  |||||   |      | | | |||| |    | |  || ||||   |     | ||| | ||  |    ||  ||||| ||     | ||||  ||||| ||||| |||||||| || || || ||||| || ||||| ||||||||||||||||| ||||| || || || ||||
cttatttttgtgtagcatgcactgatctgagttttctgttatc-cttttgcaaacaacatgataccaagatttgtttctaatattttcttccaattttcagCTGTTGGACCTGAGTGGAATTCTTACTGTCTTCTTCTGTGGAATAGTAATGTCACATTACACTTGGCATAATGTGACAGAAAGTTCTAGGGTTACCACCA

upper sequence: GLYMA17G02560.1 (Glycine max), 3'ss of exon 7
lower sequence: AT3G06370.1 (Arabidopsis thaliana), 3'ss of exon 9
---gtaagaaaattctctgaaactcgacccaccacctttgtagtgtaaaaaattccaatgctaaccaatttatttctttggcagCTATTTTCTTTAAGTGCCATTCTGACTGTTTTCTTCTGCGGCATTGTTATGTCTCACTACACGTGGCATAATGTGACAGAGAGTTCAAGAGTGACAACCA
    |||||||| | |   |   |      ||    |||  |    | |||||   ||    |  ||   ||| || || |||||||||    || ||  | ||  ||||||| ||||||||||| ||||||||||||||||| || ||||| ||||| ||||| |  || |  || || || |
gtaataagaaaaatttgaaacgttttggttacattttttccaa--cagaaaatgaaaacatgataca---tatatcctttgcagCTATTCCACTTGAGCTCTATCTTGACTGTGTTCTTCTGCGGGATTGTTATGTCTCACTATACATGGCACAATGTTACAGATAAATCCAAGGTCACTACAA

upper sequence: GLYMA17G02560.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv05s0020g01960.t01 (Vitis vinifera), 3'ss of exon 9
--------------------------------------gtaagaaaattctctgaaactcgacccaccacctttgtagtgtaaaaa---attccaatgctaaccaatttatttctttggcagCTATTTTCTTTAAGTGCCATTCTGACTGTTTTCTTCTGCGGCATTGTTATGTCTCACTACACGTGGCATAATGTGACAGAGAGTTCAAGAGTGACAACCA
                                               | ||||  |  |  || |   | |     | |    | |   |    |||  |       |||||| | |  ||||| || | ||||||||||||||| ||||| ||||| ||||| ||||| |||||||||||||| |||||||||||||| || |||||||||||||| ||||
gtaagatatcccacaacttgctgggaaatccttccctgacccctgtttgctctttatttatactcttgagccccaaaataagcacatggaccttaattttggaattgttatttgtcttacagCTGTTCTATTTAAGTGCCATTCTCACTGTGTTCTTTTGCGGGATTGTCATGTCTCACTACACATGGCATAATGTGACTGAAAGTTCAAGAGTGACTACCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caccacctttgtagtgtaaaaaattccaatgctaaccaatttatttctttggcagCTATTTTCTTTAAGTGCCATTCTGACTGTTTTCTTCTGCGGCATTGTTATGTCTCACTACACGTGGCATAATGTGACAGAGAGTTCAAGAGTGACAACCA
                             tgctaac  putative branch site (score: 1)
                                       tttatttcttt  putative PPT
                                     aatttatttcttt  TA-rich tract