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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaccctcttttgtattcttttcttaattttgtcccttcaactaattctttcatgaatatgtttgatagtgtgataattaattgtcttatgttattgattataatttacagAAGATGAGCATGATGTAGTGTGGTTTTGGTTGCACAAAGACCAACCACATGTCTGCCCAGTCTGTTCTCAACATTTCAAG

Basic information

species Vitis vinifera
transcript Vv04s0008g05100.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0008g05100.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os01g42650.1 (Oryza sativa), 3'ss of exon 4
gtaagaccctcttttgtattcttttcttaattttgtcccttcaactaattctttcatga-atatgtttgatagtgtgataattaattgtcttatgttattgattataatttacagAAGATGAGCATGATGTAGTGTGGTTTTGGTTGCACAAAGACCAACCACATGTCTGCCCAGTCTGTTCTCAACATTTCAAG
               ||       | || | || |  |    ||  || |||    ||  | || ||    | |      || ||   | ||   | | |  || | ||||||||| |||||||||||||| || ||||| |||||| | |||||  |||| ||||  |||||||||||||| ||| ||||   |
---------------gtcagtcagtgttgacttggctcagcgaa--aactctaaactgccaaatattatgcaatactggtatcaacattttt---tcacttctt-tcatttacagAGGATGAGCATGATGTTGTATGGTTCTGGTTGAAAAAAGATGAACCGCATGAGTGCCCAGTCTGTTCACAATATTTTGTG
















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|110371298|gb|EC935203.1|EC935203
EST:     TAAGTCTTTCTACGACAGAAGAATAGTGGGCTGCCCAGGTGGTGAGGGAG                         AAGATGAGCATGATGTAGTGTGGTTTTGGTTGCACAAAGACCAACCACATG
genomic: TAAGTCTTTCTACGACAGAAGAATAGTGGGCTGCCCAGGTGGTGAGGGAGgtaagaccct ... taatttacagAAGATGAGCATGATGTAGTGTGGTTTTGGTTGCACAAAGACCAACCACATG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatgtttgatagtgtgataattaattgtcttatgttattgattataatttacagAAGATGAGCATGATGTAGTGTGGTTTTGGTTGCACAAAGACCAACCACATGTCTGCCCAGTCTGTTCTCAACATTTCAAG
                                    tattgat  putative branch site (score: 3)
               tgataattaattgtct  TA-rich tract