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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatctaattgacttcctccattggcaagatctaacttgctttgatgattggtaaattgaagatgaagtgttttctaaatgtttggtttgaccgtgcagACTTGGTCATTATACAGTTCCCAAAGAGATGGATGAGGTCTGCACTTGGCTAACTGCAAGGCTGGGGCTTGAGGGGTGCCACTCATAATCACAATTATGA

Basic information

species Vitis vinifera
transcript Vv09s0002g06010.t01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0002g06010.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA15G01350.1 (Glycine max), 3'ss of exon 9
gtatctaattgacttcctccattggcaagatctaacttgctttgatgattggtaaattgaagatgaagtgttttctaaatgttt--ggtttgac---cgtgcagACTTGGTCATTATACAGTTCCCAAAGAGATGGATGAGGTCTGCACTTGGCTAACTGCAAGGCTGGGGCTTGAGGGGTGCCACTCATAATCACAATTATGA
        |    || ||  || |   | |||  |      |   ||||   | |     || | |||   || || | | |||  |||||| |    |||||| ||||||||||| |||||||| | ||| ||||||||||| ||||||||||| | | |||||||||| ||||| ||     |     | | |   |  || 
-------gtaatttttctttatagctgaaatc--atcccactaagtgatcaatgatgatcagctaaagcagttgctcactttttttggtttgccatgtgtgcagGCTTGGTCATTACACAGTTCCTAGAGAAATGGATGAGGTTTGCACTTGGCTTAGTTCAAGGCTGGGACTTGAAGGTATATAGGAGGATTTATTTTCTTGG

upper sequence: Vv09s0002g06010.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA13G43990.2 (Glycine max), 3'ss of exon 9
gtatctaattgacttcctccattggcaagatctaacttgctttgatgattggtaaattga-agatgaagtgttttctaaatgtttggtttgac---cgtgcagACTTGGTCATTATACAGTTCCCAAAGAGATGGATGAGGTCTGCACTTGGCTAACTGCAAGGCTGGGGCTTGAGGGGTGCCACTCATAATCACAATTATGA
 ||  |   | |  | |    |     |||| |   ||||    ||  ||| | |||    || | ||||  || || | | ||||||||| |    |||||| ||||||||||| || ||||| | ||||||||||||||| ||||||||| | | | ||||  |||| ||||| |||| |   | |    || |||||  |
-tagatgggtcaagttcagtttgctttagattttttttgcac--atccttgttcaatgatcagctaaagtagttgctcactttttggtttgtcatgtgtgcagGCTTGGTCATTACACGGTTCCTAGAGAGATGGATGAGGTTTGCACTTGGTTTAGTTCAAGATTGGGACTTGATGGGTCCTCGTAAGTGACATAATTAGTA

upper sequence: Vv09s0002g06010.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA07G03670.2 (Glycine max), 3'ss of exon 8
gtatctaattgacttcctccattggcaagatctaa-cttgctttga-tgattggtaaattgaagatgaagtgttttctaaatgtttggtttgaccgtgcagACTTGGTCATTATACAGTTCCCAAAGAGATGGATGAGGTCTGCACTTGGCTAACTGCAAGGCTGGGGCTTGAGGGGTGCCACTCATAATCACA-ATTATGA-
         | || |  |    ||  ||||  ||| |   || ||| ||| |   ||||   || | ||||  ||  | ||  ||  |       |||||| |||||||||||||| ||||| |  |||||||||||||||| || |||||| |   ||||||||||||| | ||| | ||||    ||| ||| | ||| | 
--------gtaacatttttttctgagaagaaataatccaactctgaatgaatcacaaatc--agttaaagtaattattgaacattctgg------gtgcagGCTTGGTCATTATACTGTTCCTAGGGAGATGGATGAGGTCTCCAATTGGCTTAGCTCAAGGCTGGGGCTAGGGGGAT-CCACATG-AATAACAGAGTATAAG

upper sequence: Vv09s0002g06010.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA08G22420.1 (Glycine max), 3'ss of exon 8
gtatctaattgacttcctccattggcaagatctaacttg-ctttga-tgattggtaaattgaagatgaagtgttttctaaatgtttggtttgaccgtgcagACTTGGTCATTATACAGTTCCCAAAGAGATGGATGAGGTCTGCACTTGGCTAACTGCAAGGCTGGGGCTTGAGGGGTGCCACTCATAATCACAATTATGA-
         | || ||     |||  || |  ||||    |||||| ||| |   ||||   || | ||||  ||  | |   ||| |       |||||| |||||||||||||| ||||| |  ||||||||||||||||  | |||||| |   ||||||||||||||| ||| | |   | |  | || | | || | 
--------gtaacatctgtttttgagaataaataacccaactttgaatgaatcacaaatc--agttaaagtaattattgagcattttgg------gtgcagGCTTGGTCATTATACCGTTCCTAGGGAGATGGATGAGGTCTCTAATTGGCTTAGCTCAAGGCTGGGGCTTGGGGGATCCACATGAATAGCATAGT-ATAAG

upper sequence: Vv09s0002g06010.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT1G52700.1 (Arabidopsis thaliana), 3'ss of exon 8
gtatctaattgacttcctccattggcaagatctaacttgctttgatgattggtaaattgaagatgaagtgttttctaaatgtttggtttg----accgtgcagACTTGGTCATTATACAGTTCCCAAAGAGATGGATGAGGTCTGCACTTGGCTAACTGCAAGGCTGGGGCTTGAGGGGTGCCACTCATAATCACA-ATTATGA
     ||||  |  | |       || | |  ||| ||| ||| || ||   |   | ||| ||      | |    | | || |||||     | |||||||||||||||||||||| ||||||| ||| ||||||||||||      ||||| ||  | | ||| || |||||||| |  | || |   | ||| | |  | 
----gtaataaaacttcaatgaacgcgaaaa-taatttgatttaattatcatttgttggaacata---cttataaagagttttgggtttatgccaacgtgcagACTTGGTCATTATACCGTTCCCAGAGAAATGGATGAGGTCGTTCACTGGCTCACAACGATGCTCGGACTTGAGGGCTCGCGCTAAACTTTACAGACTGCG-

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|110707158|gb|EE083312.1|EE083312
EST:     TGCTTAAGTTCTGCTGGATTTCGATATCTTACATTCAAAGCCTATGATGG                         ACTTGGTCATTATACAGTTCCCAAAGAGATGGATGAAGTCTGCACTTGGCT
genomic: TGCTTAAGTTCTGCTGGATTTCGATATCTTACATTCAAAGCCTATGATGGgtatctaatt ... gaccgtgcagACTTGGTCATTATACAGTTCCCAAAGAGATGGATGAGGTCTGCACTTGGCT
EST: gi|110410985|gb|EC976681.1|EC976681
EST:     TGCTTAAGTTCTGCTGGATTTCGATATCTTACATTCAAAGCCTATGATGG                         ACTTGGTCATTATACAGTTCCCAAAGAGATGGATGAGGTCTGCACTTGGCT
genomic: TGCTTAAGTTCTGCTGGATTTCGATATCTTACATTCAAAGCCTATGATGGgtatctaatt ... gaccgtgcagACTTGGTCATTATACAGTTCCCAAAGAGATGGATGAGGTCTGCACTTGGCT
EST: gi|110386327|gb|EC950914.1|EC950914
EST:     TGCTTAAGTTCTGCTGGATTTCGATATCTTACATTCAAAGCCTATGATGG                         ACTTGGTCATTATACAGTTCCCAAAGAGATGGATGAGGTCTGCACTTGGCT
genomic: TGCTTAAGTTCTGCTGGATTTCGATATCTTACATTCAAAGCCTATGATGGgtatctaatt ... gaccgtgcagACTTGGTCATTATACAGTTCCCAAAGAGATGGATGAGGTCTGCACTTGGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgattggtaaattgaagatgaagtgttttctaaatgtttggtttgaccgtgcagACTTGGTCATTATACAGTTCCCAAAGAGATGGATGAGGTCTGCACTTGGCTAACTGCAAGGCTGGGGCTTGAGGGGTGCCACTCATAATCACAATTATGA
                          ttttctaaatgttt  TA-rich tract