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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatattttcttcactttatctccttctagttaattttgataatttggtgatgttgctggaggatggtatatagaaggtttgcattgatgatgatgttacagAGATTTGGAGAAGAGGATTGTGGAAGCTGAGATGGATTTGACATTGGCCAAGAGTCAAGGGTACCTCAAGAGCCAGTTAAAACAAAGTGGGTCTTCCTCC

Basic information

species Vitis vinifera
transcript Vv04s0008g06480.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0008g06480.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA14G14000.2 (Glycine max), 3'ss of exon 3
-------------------------------gtatattttcttcactttatct---ccttctagtta-attttgataatttg-gtgatgttg--ctgga-ggatggtata--tagaa--ggtttgcattgatgatgatgttacagAGATTTGGAGAAGAGGATTGTGGAAGCTGAGATGGATTTGACATTGGCCAAGAGTCAAGGGTACCTCAAGAGCCAGTTAAAACAAAGTGGGTCTTCCTCC
                                 || || ||||   || || |      | |  | |  ||||| |  |||| |||||||||   |||| ||||  |  |  | |||    | ||  |   || || |  || || ||| |||||| |||||||||||||||||||||||| ||||||||||| ||||| ||||||||||| ||| | ||     |   ||| || |||||    
gtaaactattctacattttttatttaaattttcattttatcttgggttgatttgtgttgtttgatgatgttttgtttgtttgtgtgatgttggtttggatggatcatggaattggaattaatgtgtgtatttgttggt-ctatagGGATCTGGAGAGGAGGATTGTGGAAGCTGAGATGGAATTGACATTGGCTAAGAGCCAAGGGTACCTAAAGGGGCAAGGCCAGAGAAGCGGCTCTTCTGAT

upper sequence: Vv04s0008g06480.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA17G32180.1 (Glycine max), 3'ss of exon 3
-----------------------------------------------------------------gtatattttcttcactttatctccttctagttaattttgataatttggtgatgttgctggaggatggtatatagaaggtttgcattgatgatgatgttacagAGATTTGGAGAAGAGGATTGTGGAAGCTGAGATGGATTTGACATTGGCCAAGAGTCAAGGGTACCTCAAGAGCCAGTTAAAACAAAGTGGGTCTTCCTCC
                                                                   ||||||| ||   ||| | |   |   |||| ||| |||     | | |||    ||||   |  | | | |   || ||  |   || || | ||| || ||| |||||| |||||||||||||||||||||||| ||| ||||||| ||||| ||||||||||||||| | ||     |  ||||| | ||||||   
gtaaattattcttcttttttttaaaaaaattttaattttatcttgggttgatttgtgatgtttgatgatattttgtttg-tttgtttttgtgatgttagtttggatg----gatcatggaattggaat-taatctgt-gtgtgtgtgtgtgtttgttggt-ttatagGGATCTGGAGAGGAGGATTGTGGAAGCTGAGATGGAATTGTCATTGGCTAAGAGCCAAGGGTACCTCAAGGGGCAAGGCCAGAAAAGTAGCTCTTCCGAT
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|71856228|gb|DT005283.1|DT005283
EST:     AGACCAAAAGTTCTTACAGTTGAAGACAAGCTGACGGTATTAGGATGCAA                         AGATTTGGAGAAGAGGATTGTGGAAGCTGAGATGGATTTGACATTGGCCAA
genomic: AGACCAAAAGTTCTTACAGTTGAAGACAAGCTGATGGTATTAGGATGCAAgtatattttc ... gatgttacagAGATTTGGAGAAGAGGATTGTGGAAGCTGAGATGGATTTGACATTGGCCAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgatgttgctggaggatggtatatagaaggtttgcattgatgatgatgttacagAGATTTGGAGAAGAGGATTGTGGAAGCTGAGATGGATTTGACATTGGCCAAGAGTCAAGGGTACCTCAAGAGCCAGTTAAAACAAAGTGGGTCTTCCTCC
                                   cattgat  putative branch site (score: 4)
                    tatatagaa  TA-rich tract