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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttggtttttagcatgatatgtattatccaatgagaatcttttagcatgatatgtattatccaatgagaatctggtattcttaaaggagcatctttagaaacatatttgaatctgttttagccacttagtcctttcctgatttgccttacgtaatatttctcttttttcagGTCTGGAACCTTGAAAATTTGCAGTGTCTGCAGACGTTGACTGAACATACTTCAGTTGTAATGTCTCTTCTTTGCTGGGACCAGTTTCTTTTATCTTGTT

Basic information

species Vitis vinifera
transcript Vv16s0100g00320.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv16s0100g00320.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA09G27300.1 (Glycine max), 3'ss of exon 5
gtaagttggtttttagcatgatatgtattatccaatgagaatcttttagcatgatatgtattatccaatgagaatctggtattcttaaaggagcatctttagaaacatatttgaatctgttttagccacttagtcctttcctgatttgccttacgtaatatttctcttttttcagGTCTGGAACCTTGAAAATTTGCAGTGTCTGCAGACGTTGACTGAACATACTTCAGTTGTAATGTCTCTTCTTTGCTGGGACCAGTTTCTTTTATCTTGTT
                                    |  | | |||        || |   | | | || |   |||| | |   ||   ||     ||| |     || | |  | || |||    | || || | || ||       |  ||    |  || |  | |||||||| |||||||||||||  ||||||||| | |||||  | || || || || || ||||| |||||| |||| ||||||||||| || ||||| |||||||
------------------------------------gtaagttttt-------gtaagctctttgccataaatgtctgat-tcaatacgtgattcaatttggtgc--taataggttttggtttgttaatttggtgcatttct------tccaac----tggttgttgtctttcagGTATGGAACCTTGAAACCTTGCAGTGTTTACAGACACTAACAGAGCACACATCTGTTGTGATGTCTGTTCTCTGCTGGGACCAATTCCTTTTGTCTTGTT

upper sequence: Vv16s0100g00320.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA16G32370.1 (Glycine max), 3'ss of exon 5
gtaagttggtttttagcatgatatgtattatccaatgagaatcttttagcatgatatgtattatccaatgagaatctggtattcttaaaggagcatctttagaaacatatttgaatctgttttagccacttagtcctttcctgatttgccttacgtaatatttctcttttttcagGTCTGGAACCTTGAAAATTTGCAGTGTCTGCAGACGTTGACTGAACATACTTCAGTTGTAATGTCTCTTCTTTGCTGGGACCAGTTTCTTTTATCTTGTT
                           | |    |    |    |||  ||| | |||  | || || |     ||   ||  ||  ||| |   | ||    || |  |||   | | ||||    | || || | || ||          |  |  | | | ||||||   |||| |||||||||||||  ||||||||| | |||||  | || || || || || ||||| |||||| |||| ||||||||||| || |||||||||||||
--------------------------gtaagtttacataagctctttgccataa-atgcctgattcattt----tcctttagactctaagtaatgtatt----aataggttttgttttattttgttaatttggtacatttct-------tccaactggtttatgtctttt---agGTATGGAACCTTGAAACCTTGCAGTGTTTACAGACACTAACAGAGCACACATCTGTTGTGATGTCTGTTCTCTGCTGGGACCAATTCCTTTTATCTTGTT
















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|22009453|gb|BQ794487.1|BQ794487
EST:     TTGTTGGAGCTAACAGGCTCTACTCTGGTTCCATGGACCGTTCTATAAGA                         GTCTGGAACCTTGAAAATTTGCAGTGTCTGCAGACATTGTCTGATCATACT
genomic: TTGTTGGAGCTAACAGGCTCTACTCTGGTTCCATGGACCGTTCTATAAGAgtaagttggt ... cttttttcagGTCTGGAACCTTGAAAATTTGCAGTGTCTGCAGACGTTGACTGAACATACT
EST: gi|30322438|gb|CD005700.1|CD005700
EST:     TTGTTGGAGCTAACAGGCTCTACTCTGGTTCCATGGACCGTTCTATAAGA                         GTCTGGAACCTTGAAAATTTGCAGTGTCTGCAGACATTGACTGAACATACT
genomic: TTGTTGGAGCTAACAGGCTCTACTCTGGTTCCATGGACCGTTCTATAAGAgtaagttggt ... cttttttcagGTCTGGAACCTTGAAAATTTGCAGTGTCTGCAGACGTTGACTGAACATACT
EST: gi|22009470|gb|BQ794504.1|BQ794504
EST:     TTGTTGGAGCTAACAGGCTCTACTCTGGTTCCATGGACCGTTCTATAAGA                         GTCTGGAACCTTGAAAATTTGCAGTGTCTGCAGACATTGTCTGATCATACT
genomic: TTGTTGGAGCTAACAGGCTCTACTCTGGTTCCATGGACCGTTCTATAAGAgtaagttggt ... cttttttcagGTCTGGAACCTTGAAAATTTGCAGTGTCTGCAGACGTTGACTGAACATACT
EST: gi|22009471|gb|BQ794505.1|BQ794505
EST:     TTGTTGGAGCTAACAGGCTCTACTCTGGTTCCATGGACCGTTCTATAAGA                         GTCTGGAACCTTGAAAATTTGCAGTGTCTGCAGACATTGTCTGATCATACT
genomic: TTGTTGGAGCTAACAGGCTCTACTCTGGTTCCATGGACCGTTCTATAAGAgtaagttggt ... cttttttcagGTCTGGAACCTTGAAAATTTGCAGTGTCTGCAGACGTTGACTGAACATACT
EST: gi|34545194|gb|CF513426.1|CF513426
EST:     TTGTTGGAGCTAACAGGCTCTACTCTGGTTCCATGGACCGTTCTATAAGA                         GTCTGGAACCTTGAAAATTTGCAGTGTCTGCAGACGTTGACTGAACATACT
genomic: TTGTTGGAGCTAACAGGCTCTACTCTGGTTCCATGGACCGTTCTATAAGAgtaagttggt ... cttttttcagGTCTGGAACCTTGAAAATTTGCAGTGTCTGCAGACGTTGACTGAACATACT
EST: gi|34546189|gb|CF514421.1|CF514421
EST:     TTGTTGGAGCTAACAGGCTCTACTCTGGTTCCATGGACCGTTCTATAAGA                         GTCTGGAACCTTGAAAATTTGCAGTGTCTGCAGACGTTGACTGAACATACT
genomic: TTGTTGGAGCTAACAGGCTCTACTCTGGTTCCATGGACCGTTCTATAAGAgtaagttggt ... cttttttcagGTCTGGAACCTTGAAAATTTGCAGTGTCTGCAGACGTTGACTGAACATACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttagccacttagtcctttcctgatttgccttacgtaatatttctcttttttcagGTCTGGAACCTTGAAAATTTGCAGTGTCTGCAGACGTTGACTGAACATACTTCAGTTGTAATGTCTCTTCTTTGCTGGGACCAGTTTCTTTTATCTTGTT
                           gccttac  putative branch site (score: 3)
                                      tatttctcttttttc  putative PPT
                                   taatatttctcttttt  TA-rich tract