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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagttcttacacttttctttgtcaataccactagatgtctataccttgaactaaatatttctaagattgtgtattgtgatatgaacatttctgcatttgtgcaatatatagGACTTTATGCTTGGAGAGACAGTAAGAAGCTTACCTCATTGCCATCACATGTTTCACCTACCTTGCATAGATAAGTGGCTCTTCAGACATGGTTCTTGCC

Basic information

species Glycine max
transcript GLYMA11G08540.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G08540.1 (Glycine max), 3'ss of exon 4
lower sequence: AT2G17730.1 (Arabidopsis thaliana), 3'ss of exon 4
gttagttcttacacttttctttgtcaataccactagatgtctatacc--ttgaactaaatatttctaagattgtgtattgtgatatgaacatttctgcatttgtgcaatatatagGACTTTATGCTTGGAGAGACAGTAAGAAGCTTACCTCATTGCCATCACATGTTTCACCTACCTTGCATAGATAAGTGGCTCTTCAGACATGGTTCTTGCC
                      || | | | | |    || |    |  || |  | | ||| || ||      |  || | ||  |     || ||  ||| | |    |  |||| ||   ||| || || ||||| |||||||| |||||||| ||||||||||||||| ||||||||||||| || |||||| | ||||| ||||||||||
----------------------gttagttctattgtcagtttgcttcgttttagttcattatgtcgaat----cgagttctaattcggg---ttttgtctttctcc----ttcagGATTTCCAGCTCGGTGAAACAGTTAGAAGCTTGCCTCATTGTCATCACATGTTTCACTTACCTTGCATAGACAATTGGCTCCTTAGACACGGTTCTTGCC

upper sequence: GLYMA11G08540.1 (Glycine max), 3'ss of exon 4
lower sequence: AT2G17730.2 (Arabidopsis thaliana), 3'ss of exon 4
gttagttcttacacttttctttgtcaataccactagatgtctatacc--ttgaactaaatatttctaagattgtgtattgtgatatgaacatttctgcatttgtgcaatatatagGACTTTATGCTTGGAGAGACAGTAAGAAGCTTACCTCATTGCCATCACATGTTTCACCTACCTTGCATAGATAAGTGGCTCTTCAGACATGGTTCTTGCC
                      || | | | | |    || |    |  || |  | | ||| || ||      |  || | ||  |     || ||  ||| | |    |  |||| ||   ||| || || ||||| |||||||| |||||||| ||||||||||||||| ||||||||||||| || |||||| | ||||| |         
----------------------gttagttctattgtcagtttgcttcgttttagttcattatgtcgaat----cgagttctaattcggg---ttttgtctttctcc----ttcagGATTTCCAGCTCGGTGAAACAGTTAGAAGCTTGCCTCATTGTCATCACATGTTTCACTTACCTTGCATAGACAATTGGCTCCTTAGACACG---------

upper sequence: GLYMA11G08540.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G35840.1 (Arabidopsis thaliana), 3'ss of exon 4
gttagttcttacacttttctttgtcaataccactagatgtctataccttgaactaaatatttctaagattgtgtattgtgatatgaacatttctgcatttgtgcaatatatagGACTTTATGCTTGGAGAGACAGTAAGAAGCTTACCTCATTGCCATCACATGTTTCACCTACCTTGCATAGATAAGTGGCTCTTCAGACATGGTTCTTGCC
     || || | | ||||    ||||    || | || |  || ||   || |  | |     ||| ||  || |  |||| |   | ||| || |  |      | |  |||| |||   ||||| || || || |||||||| || ||||| ||||||||||||||| | ||||||||||| || ||||||||||| || || ||||| |
---gttttttgctcatttcagc-tcaa----acgaaatcttaattccccaaa-tgcagaaccaaaaggtttagt-tcttgatctt--cttttgtgtaactt-----tttgcagGATTTTCAACTTGGTGAAACGGTGAGAAGCTTGCCACATTGTCATCACATGTTTCACTTGCCTTGCATAGACAATTGGCTCTTCAGGCACGGATCTTGTC

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

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|207831012|gb|GD805070.1|GD805070
EST:     ACAATTTTGATGCACCCGGTGATAGAGTCTCTTGTTCAGTTTGCCTGCAG                         GACTTTATGCTTGGAGAGACAGTAAGAAGCTTACCTCATTGCCATCACATG
genomic: ACAATTTTGATGCATCCGGTGATAGAGTCTCTTGTTCAGTTTGCCTGCAGgttagttctt ... caatatatagGACTTTATGCTTGGAGAGACAGTAAGAAGCTTACCTCATTGCCATCACATG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttctaagattgtgtattgtgatatgaacatttctgcatttgtgcaatatatagGACTTTATGCTTGGAGAGACAGTAAGAAGCTTACCTCATTGCCATCACATGTTTCACCTACCTTGCATAGATAAGTGGCTCTTCAGACATGGTTCTTGCC
                                              aatatata  TA-rich tract