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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcaacttctctattactcaaaatcgtccattattaacttcctgaatctttgcaggaagagaagggaagaaaagggaattagtgtttgtagactgttctaaataatatttattttcttcttgctaaatagGCAACAGCATTTGGTATGAACAGTGTGGTTTATGTGCCTCGAATCAAACTAGACACAGTAACAGCATTATCTGCATTTTGTGAAAAGGCCAGCATG

Basic information

species Vitis vinifera
transcript Vv16s0100g00480.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv16s0100g00480.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA20G29480.2 (Glycine max), 3'ss of exon 3
gttcaacttctctattactcaaaatcgtccattattaacttcctgaatctttgcaggaagagaagggaagaaaagggaattagtgtttgtagactgttctaaataatatttattttcttcttgctaaatagGCAACAGCATTTGGTATGAACAGTGTGGTTTATGTGCCTCGAATCAAACTAGACACAGTAACAGCATTATCTGCATTTTGTGAAAAGGCCAGCATG
                              |  | |||| ||   | |  | |  |  | |  ||       |     || | |  ||  | | ||| | || |  ||   ||   ||  ||  | | ||||||||||||||||| ||||| || || ||||| ||||||| ||||||| ||||||| ||| | |||||||||||||| || || ||||||||||||
-----------------------------gaagactaacctcagaagttatagttgtgacattagactttgtattttgat-actagtttcaca-tgtgccaagtgttaaacatcaactcattcttcattagGCAACAGCATTTGGCATGAAAAGCGTAGTTTACGTGCCTCAAATCAAATTAGACACGGTAGCTGCATTATCTGCATTCTGCGACAAGGCCAGCATG

upper sequence: Vv16s0100g00480.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G38370.1 (Glycine max), 3'ss of exon 4
gttcaacttctctattactcaaaatcgtccattattaacttcctgaatctttgcaggaagagaagggaagaaaagggaattagtgtttgtagactgttctaaataatatttattttcttcttgctaaatagGCAACAGCATTTGGTATGAACAGTGTGGTTTATGTGCCTCGAATCAAACTAGACACAGTAACAGCATTATCTGCATTTTGTGAAAAGGCCAGCATG
                   | | ||     |  | || | ||   | |  |      | | ||    |      |    ||    | ||   | ||||     ||||  | | ||  |||||  |   ||||||||||||||||| ||||| ||  | ||||| ||||| ||||||||| ||||||| ||| | |||||||||||||| || || ||||||||||||
-------------------ctagatta---aagactagcctctgaagttat----aaatgtgacattagactttgtattttgacatgtgcgaagtgttt--gttaatcatcaattcattcttcat---tagGCAACAGCATTTGGCATGAAAAGCATAGTTTACGTGCCCCGAATCAAATTAGACACGGTAGCTGCATTATCTGCATTCTGCGAGAAGGCCAGCATG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaattagtgtttgtagactgttctaaataatatttattttcttcttgctaaatagGCAACAGCATTTGGTATGAACAGTGTGGTTTATGTGCCTCGAATCAAACTAGACACAGTAACAGCATTATCTGCATTTTGTGAAAAGGCCAGCATG
                    ttctaaa  putative branch site (score: 2)
                                tttattttcttcttgc  putative PPT
                    ttctaaataatattta  TA-rich tract