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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatagccataagttttcctctacataatttctccttcttataaataaataggctttcagtgatttgtatagaagcttatttaattgaaattggaacttctgcattttcagGACTTTCAGCTTGGAGAGACAGTCCGAAGTTTGCCCCATTGTCACCATATGTTTCACCTGCCATGCATTGATAAGTGGCTCCTTGGACACGGTTCTTGCC

Basic information

species Vitis vinifera
transcript Vv00s0264g00020.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv00s0264g00020.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G05000.1 (Glycine max), 3'ss of exon 4
gtatagccataagttttcctctacataatttctccttcttataaataaataggctttcagtgatttgtatagaagcttatttaattgaaattggaacttctgcattttcagGACTTTCAGCTTGGAGAGACAGTCCGAAGTTTGCCCCATTGTCACCATATGTTTCACCTGCCATGCATTGATAAGTGGCTCCTTGGACACGGTTCTTGCC
    ||  | ||    |    ||  | ||||    || ||     |    |       |  ||   ||    |||||| |||| || |   || || || ||||||| ||||||||||||||||| ||||| |   |||||||||| |||||||| || || |||||||| || |||||||||||||||||  |    || ||||||||||
----agaaaaaaaaacttaggtatttgattttattttatttctggtggtga------taaagaaaagttgctaagcttgtttattttattgtg-aatttttgcatttgcagGACTTTCAGCTTGGGGAGACTGGTAGAAGTTTGCCTCATTGTCATCACATTTTTCACCTACCTTGCATTGATAAGTGGCTGATCAAGCATGGTTCTTGCC

upper sequence: Vv00s0264g00020.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA01G36760.1 (Glycine max), 3'ss of exon 5
--------gtatagccataagttttcctctacataatttctccttcttataaataaataggctttcagtgatttgtatagaagcttatttaattgaaattggaacttctgca-ttttcagGACTTTCAGCTTGGAGAGACAGTCCGAAGTTTGCCCCATTGTCACCATATGTTTCACCTGCCATGCATTGATAAGTGGCTCCTTGGACACGGTTCTTGCC
         || | |  ||  |  ||     ||  |  | ||  |    | ||  ||  |  ||  |    | ||||| |     |||  |  |    |  | | || |||| | |  ||||||||  |||||||||||||||  |||| ||||| ||||| || || ||||||||||| || ||||| |||||||||||| |  |||| ||||||||||
gttagtttttaca-ctttacatcgtcaataccactagatgtctataccttgaactaaatgttttctaagattgtgtattgtgatatatgaacatt---tctgcatttgtgcaatatatagGACTTTATGCTTGGAGAGACAGTAAGAAGCTTGCCTCATTGCCATCACATGTTTCACCTACCTTGCATAGATAAGTGGCTCTTCAGACATGGTTCTTGCC

upper sequence: Vv00s0264g00020.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G08540.1 (Glycine max), 3'ss of exon 4
gtatagccataagttttcctctacataatttctccttcttataaataaataggctttcagtgatttgtatagaagcttatttaat-tgaaattggaacttctgcattttc---------agGACTTTCAGCTTGGAGAGACAGTCCGAAGTTTGCCCCATTGTCACCATATGTTTCACCTGCCATGCATTGATAAGTGGCTCCTTGGACACGGTTCTTGCC
         | |||| |        |  ||     | |   || ||   ||  | || |   |  | | |  ||| || | || | ||| ||    | ||||||||||           ||||||||  |||||||||||||||  |||| || || ||||| || || ||||||||||| || ||||| |||||||||||| |  |||| ||||||||||
--------gttagttcttacacttttctttgtcaataccactagatgtctataccttgaactaaatatttctaagattgtgtattgtgatatgaacatttctgcatttgtgcaatatatagGACTTTATGCTTGGAGAGACAGTAAGAAGCTTACCTCATTGCCATCACATGTTTCACCTACCTTGCATAGATAAGTGGCTCTTCAGACATGGTTCTTGCC

upper sequence: Vv00s0264g00020.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT2G17730.1 (Arabidopsis thaliana), 3'ss of exon 4
gtatagccataagttttcctctacataatttctccttcttataaataaataggctttcagtgatttgtatagaagcttatt-taattgaaattggaacttctgcattttcagGACTTTCAGCTTGGAGAGACAGTCCGAAGTTTGCCCCATTGTCACCATATGTTTCACCTGCCATGCATTGATAAGTGGCTCCTTGGACACGGTTCTTGCC
                             ||     | || | | |        ||| |||   || | | ||| |   || |||||    ||    |||   |   ||||||| || ||||| || || |||||  |||| ||||| |||||||| || ||||||||| | || ||||| || || ||||||||| |||||||||||||||
----------------------------gttagttctattgtcagtttgcttcgttttagttcattatgtcgaatcgagttctaattcgggttttgtctttctc--cttcagGATTTCCAGCTCGGTGAAACAGTTAGAAGCTTGCCTCATTGTCATCACATGTTTCACTTACCTTGCATAGACAATTGGCTCCTTAGACACGGTTCTTGCC

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|110714538|gb|EE091563.1|EE091563
EST:     ATAATGGGGATGCTTCTGGAGAGAAGGTCTCTTGCTCAGTGTGCCTTCAG                         GACTTTCAGCTTGGAGAGACAGTCCGAAGTTTGCCCCATTGTCACCATATG
genomic: ATAATGGGGATGCTTCTGGAGAGAAGGTCTCTTGCTCAGTGTGCCTTCAGgtatagccat ... gcattttcagGACTTTCAGCTTGGAGAGACAGTCCGAAGTTTGCCCCATTGTCACCATATG
EST: gi|30304420|gb|CB981214.1|CB981214
EST:     ATAATGGGGATGCTTCTGGAGAGAAGGTCTCTTGCTCAGTGTGCCTTCAG                         GACTTTCAGCTTGGAGAGACAGTCCGAAGTTTGCCCCATTGTCACCATATG
genomic: ATAATGGGGATGCTTCTGGAGAGAAGGTCTCTTGCTCAGTGTGCCTTCAGgtatagccat ... gcattttcagGACTTTCAGCTTGGAGAGACAGTCCGAAGTTTGCCCCATTGTCACCATATG
EST: gi|34320290|gb|CF373044.1|CF373044
EST:     ATAATGGGGATGCTTCTGGAGAGAAGGTCTCTTGCTCAGTGTGCCTTCAG                         GACTTTCAGCTTGGAGAGACAGTCCGAAGTTTGCCCCATTGTCACCATATG
genomic: ATAATGGGGATGCTTCTGGAGAGAAGGTCTCTTGCTCAGTGTGCCTTCAGgtatagccat ... gcattttcagGACTTTCAGCTTGGAGAGACAGTCCGAAGTTTGCCCCATTGTCACCATATG
EST: gi|110721740|gb|EE097361.1|EE097361
EST:     ATAATGGGGATGCTTCTGGAGAGAAGGTCTCTTGCTCAGTGTGCCTTCAG                         GACTTTCAGCTTGGAGAGACAGTCCGAAGTTTGCCCCATTGTCACCATATG
genomic: ATAATGGGGATGCTTCTGGAGAGAAGGTCTCTTGCTCAGTGTGCCTTCAGgtatagccat ... gcattttcagGACTTTCAGCTTGGAGAGACAGTCCGAAGTTTGCCCCATTGTCACCATATG
EST: gi|110401985|gb|EC968614.1|EC968614
EST:     TGCTTCTGGAGAGAAGGTCTCTTGCTCAGTGTGCCTTCAG                         GACTTTCAGCTTGGAGAGACAGTCCGAAGTTTGCCCCATTGTCACCATATG
genomic: TGCTTCTGGAGAGAAGGTCTCTTGCTCAGTGTGCCTTCAGgtatagccat ... gcattttcagGACTTTCAGCTTGGAGAGACAGTCCGAAGTTTGCCCCATTGTCACCATATG
EST: gi|110374711|gb|EC939634.1|EC939634
EST:     ATAATGGGGATGCTTCTGGAGAGAAGGTCTCTTGCTCAGTGTGCCTTCAG                         GACTTTCAGCTTGGAGAGACAGTCCGAAGTTTGCCCCATTGTCACCATATG
genomic: ATAATGGGGATGCTTCTGGAGAGAAGGTCTCTTGCTCAGTGTGCCTTCAGgtatagccat ... gcattttcagGACTTTCAGCTTGGAGAGACAGTCCGAAGTTTGCCCCATTGTCACCATATG
EST: gi|110430291|gb|EC996837.1|EC996837
EST:     ATAATGGGGATGCTTCTGGAGAGAAGGTCTCTTGCTCAGTGTGCCTTCAG                         GACTTTCAGCTTGGAGAGACAGTCCGAAGTTTGCCCCATTGTCACCATATG
genomic: ATAATGGGGATGCTTCTGGAGAGAAGGTCTCTTGCTCAGTGTGCCTTCAGgtatagccat ... gcattttcagGACTTTCAGCTTGGAGAGACAGTCCGAAGTTTGCCCCATTGTCACCATATG
EST: gi|30304486|gb|CB981280.1|CB981280
EST:     ATAATGGGGATGCTTCTGGAGAGAAGGTCTCTTGCTCAGTGTGCCTTCAG                         GACTTTCAGCTTGGAGAGACAGTCCGAAGTTTGCCCCATTGTCACCATATG
genomic: ATAATGGGGATGCTTCTGGAGAGAAGGTCTCTTGCTCAGTGTGCCTTCAGgtatagccat ... gcattttcagGACTTTCAGCTTGGAGAGACAGTCCGAAGTTTGCCCCATTGTCACCATATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcagtgatttgtatagaagcttatttaattgaaattggaacttctgcattttcagGACTTTCAGCTTGGAGAGACAGTCCGAAGTTTGCCCCATTGTCACCATATGTTTCACCTGCCATGCATTGATAAGTGGCTCCTTGGACACGGTTCTTGCC
                      atttaat  putative branch site (score: 4)
                                        cttctgc  putative PPT
                    ttatttaattgaaatt  TA-rich tract