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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaattagtaccattttcaaattcatatattttacacaagaagcattaaatattgtttataatattctatagacatgtgtaaaattgtgtaaatgtagaatgccttaaattgttgaataggcaatggctatttaattaagaattgtttctgcattgttttgatagGAGCCAGTTCTTCCTGGATGTTTCCTGCGAGCCAGGGCCATTGTACTGATGCCCATGATTGACGGG

Basic information

species Glycine max
transcript GLYMA18G18510.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G18510.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os05g36260.1 (Oryza sativa), 3'ss of exon 3
gtaaattagtaccattttcaaattcatatattttacacaagaagcattaaatattgtttataatattctatagacatgtgtaaaattgtgtaaatgtagaatgccttaaattgttgaataggcaatggcta-tttaattaagaattgtttctgcattgttttga--tagGAGCCAGTTCTTCCTGGATGTTTCCTGCGAGCCAGGGCCATTGTACTGATGCCCATGATTGACGGG
                                                                      |  |||    | |     |  |  |     ||| || | ||| |       ||| | |||| |||   |||          ||  |||||   |   |||| |||||||||||||| |  ||||| ||||||||||||||||  || ||||| |||||||||  |
---------------------------------------------------------------------gtgaacagaattgacgcccttaattttctatatgactcacattttct-----gcatttgctaatttgtctaacgtacaaccttgtgttgttcgcaaccagGAACCAGTTCTTCCTGGTTCATTCCTCCGAGCCAGGGCCATTGGTCTCATGCCTATGATTGACCAG

upper sequence: GLYMA18G18510.1 (Glycine max), 3'ss of exon 4
lower sequence: AT2G46860.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaaattagtaccattttcaaattcatatattttacacaagaagcattaaatattgtttataatattctatagacatgtgtaaaattgtgtaaatgtagaatgccttaa--attgttgaataggcaatggctatttaattaagaattgtttctgcattgttttgatagGAGCCAGTTCTTCCTGGATGTTTCCTGCGAGCCAGGGCCATTGTACTGATGCCCATGATTGACGGG
                                                                                   || |||||      | |    |  ||  ||  |  ||||    || |   | |||       | | |||||  | ||     ||||| ||||| ||||| ||||||||||| || || || ||||||| | | ||||||||||||||   |
---------------------------------------------------------------------------------gtaactgtgttttcaca-accatcaaaattatcatcaaataccacattgtgttgtaacctgagttagcttctgattcgt----gtagGAACCAGTGCTTCCCGGATGTTTCCTCCGTGCTAGAGCCATTGGATTAATGCCCATGATTGATCAG

upper sequence: GLYMA18G18510.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv02s0025g02980.t01 (Vitis vinifera), 3'ss of exon 4
gtaaattagtaccattttcaaattcatatattttacacaagaagcattaaatattgtttataatattctatagacatgtgtaaaattgtgtaaatgtagaatgccttaaattgttgaataggcaatggctatttaattaagaattgtttctgcattgttttgatagGAGCCAGTTCTTCCTGGATGTTTCCTGCGAGCCAGGGCCATTGTACTGATGCCCATGATTGACGGG
                                      |      | || |||   ||||    ||  ||    |  || |    || || || |  | |  |   |       |  || || | ||  | |  ||     || ||      |||| |||  | |||| |||||| ||||||| ||||| || ||||||||||||||||  |||||||||||||||||   |
------------------------------------gtagttcaaactagatagcatttaatcaataataagagctcgtctttgttt-tgcaact--aaacagttgtgggcgagtagattggaagtgtttttacaagctcaaactg-----acatt-tttgaacagGAACCAGTTGTTCCTGGCTGTTTTCTTCGAGCCAGGGCCATTGGGCTGATGCCCATGATTGATCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttgaataggcaatggctatttaattaagaattgtttctgcattgttttgatagGAGCCAGTTCTTCCTGGATGTTTCCTGCGAGCCAGGGCCATTGTACTGATGCCCATGATTGACGGG
                   atttaat  putative branch site (score: 4)
                                           ttgtttt  putative PPT
                  tatttaattaagaatt  TA-rich tract