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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttttctgtcttgttaagaaatttttattcagtttcttctgttgctttctttaaaatattctactgggtgtcgataagattttaagcttcaatatcttggctaaatatgatctgtttgcacaaatttcttcttcagGACCCTGCAGAGGCTGATAAGTTGCTGAAAATTCAGAGGGATTTGGATGAGACCAAAATTATCCTT

Basic information

species Vitis vinifera
transcript Vv14s0060g00090.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0060g00090.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os01g73300.1 (Oryza sativa), 3'ss of exon 3
gtacttttctgtcttgttaagaaatttttattcagtttcttctgttgctttctttaaaatattctactgggtgtcgataagattttaagcttcaatatcttggctaaatatgatctgtttgcacaaat-ttcttcttcagGACCCTGCAGAGGCTGATAAGTTGCTGAAAATTCAGAGGGATTTGGATGAGACCAAAATTATCCTT
                                          | ||  ||||||   |||  || || | |   || | |    | | ||||  || | ||    |  ||   |||   | | ||| | || |||| ||||| |||||||||||||| |||||||||||||||||||||||||||||||| || || ||||| |||
-------------------------------------ggccatattattttcttgttaattgtcaacggtgcaccgcttaa--ctgatgcttgtat-tgttaaacatctaatttcttgcttcccaattattattctgcagGATCCTGCAGAGGCTGACAAGTTGCTGAAAATTCAGAGGGATTTGGATGAAACTAAGATTATTCTT

upper sequence: Vv14s0060g00090.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os01g64650.1 (Oryza sativa), 3'ss of exon 3
gtacttttctgtcttgttaagaaatttttattcagtttcttctgttgctttctttaaaatattc-tactgggtgtcgataagattttaagcttcaatatcttggctaaatatgatctgtttgcacaaatttcttcttcagGACCCTGCAGAGGCTGATAAGTTGCTGAAAATTCAGAGGGATTTGGATGAGACCAAAATTATCCTT
                                    ||||| |  |  ||  |  ||| |     ||||      ||  |     |   || | ||| | ||      | || |  || || ||     || || |  ||||||||||||||||||| |||||  ||||||| |||||||| |||||||| || ||||||||||| 
----------------------------------tcttcttgtccttgttggtccaaactgccagtacttaaacacg-cactgcatcctgcatgaatgttttcttatgagataacttgatttca-----ttattttgtagGACCCTGCAGAGGCTGACAAGTTAATGAAAATCCAGAGGGACTTGGATGAAACAAAAATTATCCTA

upper sequence: Vv14s0060g00090.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G387076_T02 (Zea mays), 3'ss of exon 4
gtacttttctgtcttgttaagaaatttttattcagtttcttctgttgctttctttaaaatattctactgggtgtcgataagattttaagcttcaatatcttggctaaatatgatctgtttgcacaaatttcttcttcagGACCCTGCAGAGGCTGATAAGTTGCTGAAAATTCAGAGGGATTTGGATGAGACCAAAATTATCCTT
               |||| |   ||  ||||   ||    ||||   || |||||    | ||||   |   ||   ||||     |||    ||||     |||   ||||| ||||               |  |||| ||||| || ||||| || ||  |||||||||||||||| |||||||| || ||||||||||| 
---------------gttatgtggttgatattggattatgcctgta--ttccttta---cactctatctgcc-tcataaaga-----agc----atattcacactactcatgatatgttcat---------cattgtagGATCCTGCGGAAGCTGACAAATTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATCCTA

upper sequence: Vv14s0060g00090.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G178244_T01 (Zea mays), 3'ss of exon 3
gtacttttctgtcttgttaagaaatttttattcagtttcttctgttgctttctttaaaatattctactgggtgtcgataagattttaagcttcaatatcttggctaaatatgatctgtttgcacaaatttcttcttcagGACCCTGCAGAGGCTGATAAGTTGCTGAAAATTCAGAGGGATTTGGATGAGACCAAAATTATCCTT
                                  | |  | |||    | |   |  |  | | |||    | ||      ||    |      |||     | ||   |||     |    | |  ||  || |  |||||||||| || ||||| ||  |  |||||||||||||||| |||||||| || |||||||| |||
--------------------------------tggctgatactgg-attatgcctgtatcactttacaccctatctgcctcatacggaagc---atactcacgttactcatgggtcatg---atatgttcattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaagcttcaatatcttggctaaatatgatctgtttgcacaaatttcttcttcagGACCCTGCAGAGGCTGATAAGTTGCTGAAAATTCAGAGGGATTTGGATGAGACCAAAATTATCCTT
                 ggctaaa  putative branch site (score: 3)
                                           tttcttcttc  putative PPT
                    taaatatgat  TA-rich tract