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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgttaagtgttaacaattcaacatcttctttctcaattaatttagtttaatttaatgaggctgcttgttctggagtccaatttgcattataaattatttatggattgggccattagattaattaacctttagcagcttcatgttttgaatacttttttggaattaactcataatatgtggtggggtttgttcagGCTGCAAGTTTTGGAGGGTCAAATATTGATCCATCAGCTTGGGAGGATAAGAAGTGCCCTGGTGAATCTCGTTTCCCCGCTCAGGTAACACTGTAATCCA

Basic information

species Glycine max
transcript GLYMA08G02840.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G02840.2 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM5G860590_T01 (Zea mays), 3'ss of exon 2
gtgtgttaagtgttaacaattcaacatcttctttctcaattaatttagtttaatttaatgaggctgcttgttctgg-agtccaatttgcattataa-attatttatggattgggccattagattaattaacctttagcagcttcatgttttgaatacttttttggaattaactcataatatgtggtggggtttgttcagGCTGCAAGTTTTGGAGGGTCAAATATTGATCCATCAGCTTGGGAGGATAAGAAGTGCCCTGGTGAATCTCGTTTCCCCGCTCAGGTAACACTGTAATCCA
    || | ||   ||| ||   || |  |||     | |   ||  |||||   | || |   |  ||  ||    ||||  ||    || ||   || ||||  | ||       ||  | | ||   | | | |   ||  || |    || |       |||| |  |||||  | | |||   |       ||||||||||| || ||||| || || || |||||| ||||||||||||| ||||||||||| || || || || ||||| ||||||                
----gtgaggtccaaactat---acctactctactctactcttttgtgtttatcatcatcatcattattactcgatcagtcgtatgcatatgattccatcatttcagcatctttatctttcaatcat--gcttgtggttactaaatata--aaaaaagaagggggaaatttctcatcgtctatgggacga---acgcagGCTGCAAGCTTCGGAGGATCCAACATCGATCCAGCAGCTTGGGAGGACAAGAAGTGCCCCGGCGAGTCCCGCTTCCCTGCTCAG----------------

upper sequence: GLYMA08G02840.2 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM5G860590_T02 (Zea mays), 3'ss of exon 2
gtgtgttaagtgttaacaattcaacatcttctttctcaattaatttagtttaatttaatgaggctgcttgttctgg-agtccaatttgcattataa-attatttatggattgggccattagattaattaacctttagcagcttcatgttttgaatacttttttggaattaactcataatatgtggtggggtttgttcagGCTGCAAGTTTTGGAGGGTCAAATATTGATCCATCAGCTTGGGAGGATAAGAAGTGCCCTGGTGAATCTCGTTTCCCCGCTCAGGTAACACTGTAATCCA
           ||  | || |  || |  |||     | |   ||  |||||   | || |   |  ||  ||    ||||  ||    || ||   || ||||  | ||       ||  | | ||   | | | |   ||  || |    || |       |||| |  |||||  | | |||   |       ||||||||||| || ||||| || || || |||||| ||||||||||||| ||||||||||| || || || || ||||| ||||||                
-----------gtcca-aactatacctactctactctactcttttgtgtttatcatcatcatcattattactcgatcagtcgtatgcatatgattccatcatttcagcatctttatctttcaatcat--gcttgtggttactaaatata--aaaaaagaagggggaaatttctcatcgtctatgggacga---acgcagGCTGCAAGCTTCGGAGGATCCAACATCGATCCAGCAGCTTGGGAGGACAAGAAGTGCCCCGGCGAGTCCCGCTTCCCTGCTCAG----------------

upper sequence: GLYMA08G02840.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv02s0025g01720.t01 (Vitis vinifera), 3'ss of exon 2
gtgtgttaagtgttaacaattcaacatcttctttctcaattaatttagtttaatttaatgaggctgcttgttctggagtccaatttgcattataaattatttatggattgggccattagattaa--ttaacctttagcagcttcatgttttgaatacttttttggaattaactcataatatgtggtggggtttgttcagGCTGCAAGTTTTGGAGGGTCAAATATTGATCCATCAGCTTGGGAGGATAAGAAGTGCCCTGGTGAATCTCGTTTCCCCGCTCAGGTAACACTGTAATCCA
                                           |||   ||  |||               |||| |||  ||||    |    | |  |||  || ||   | |  | ||||   | ||  || |||| |||||||||||| ||   | |     |||| || ||  |||        || ||||||||||||||| ||||||||  |||| ||||||||| | ||||||||||| |||||||||||||| ||||| || ||||| ||||||                
------------------------------------------gtttgtatttctttctaagaatcataaactctgcagt--aattcatgt----attcttttggggttttctcaaaaatattagattcaatattcagca-cttcatgttttggat---tatgcaccattacctaatgttatac----ttgtatgttcagGCTGCAAGCTTTGGAGGAACAAACATTGATCCAACTGCTTGGGAGGACAAGAAGTGCCCTGGCGAATCACGCTTCCCTGCTCAG----------------

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|193522381|gb|FK479916.1|FK479916
EST:     CCCTTTTCCTTTACAACTATTCCACTCACCAACTCCATGGAATCTTTGAG                         GCTGCAAGTTTTGGAGGGT
genomic: CCCTTTTCCTTTACAACTATTCCACTCACCAACTCCATGGAATCTTTGAGgtgtgttaag ... gtttgttcagGCTGCAAGTTTTGGAGGGT
EST: gi|207749632|gb|GD721890.1|GD721890
EST:     ACCAACTCCATGGAATCTTTGAG                         GCTGCAAGTTTTGGAGGGTCAAATATTG
genomic: ACCAACTCCATGGAATCTTTGAGgtgtgttaag ... gtttgttcagGCTGCAAGTTTTGGAGGGTCAAATATTG
EST: gi|208240854|gb|GE036856.1|GE036856
EST:     CCCTTTTCCTTTACAACTATTCCACTCACCAACTCCATGGAATCTTTGAG                         GCTGCAAGTTTTGGAGGGTCAAATATTGATCCATCAGCTTGGGAGGATAAG
genomic: CCCTTTTCCTTTACAACTATTCCACTCACCAACTCCATGGAATCTTTGAGgtgtgttaag ... gtttgttcagGCTGCAAGTTTTGGAGGGTCAAATATTGATCCATCAGCTTGGGAGGATAAG
EST: gi|193447072|gb|FK416277.1|FK416277
EST:     CCCTTTTCCTTTACAACTATTCCACTCACCAACTCCATGGAATCTTTGAG                         GCTGCAAGTTTTGGAGGGTCAAATATTGATCCATCAGCTTGGGAGGATAAG
genomic: CCCTTTTCCTTTACAACTATTCCACTCACCAACTCCATGGAATCTTTGAGgtgtgttaag ... gtttgttcagGCTGCAAGTTTTGGAGGGTCAAATATTGATCCATCAGCTTGGGAGGATAAG
EST: gi|208028223|gb|GD826286.1|GD826286
EST:     CCCTTTTCCTTTACAACTATTCTACTCACCAACTTCATGGAATCTTTCAG                         GCTGCAAGTTTTGGAGGGTCAAATATTGATCCATCAGCTTGGGAGGATAAG
genomic: CCCTTTTCCTTTACAACTATTCCACTCACCAACTCCATGGAATCTTTGAGgtgtgttaag ... gtttgttcagGCTGCAAGTTTTGGAGGGTCAAATATTGATCCATCAGCTTGGGAGGATAAG
EST: gi|193718263|gb|FK653071.1|FK653071
EST:     CCCTTTTCCTTTACAACTATTCCACTCACCAACTCCATGGAATCTTTGAG                         GCTGCAAGTTTTGGAGGGTC
genomic: CCCTTTTCCTTTACAACTATTCCACTCACCAACTCCATGGAATCTTTGAGgtgtgttaag ... gtttgttcagGCTGCAAGTTTTGGAGGGTC
EST: gi|207695662|gb|GD677185.1|GD677185
EST:     CCCTTTTCCTTTACAACTATTCCACTCACCAACTCCATGGAATCTTTGAG                         GCTGCAAGTTTTGGAGGGTCAAATATTGATCCATCAGCTTGGGAGGATAAG
genomic: CCCTTTTCCTTTACAACTATTCCACTCACCAACTCCATGGAATCTTTGAGgtgtgttaag ... gtttgttcagGCTGCAAGTTTTGGAGGGTCAAATATTGATCCATCAGCTTGGGAGGATAAG
EST: gi|208270862|gb|GE069898.1|GE069898
EST:     CCCTTTTCCTTTACAACTATTCCACTCACCAACTCCATGGAATCTTTGAG                         GCTGCAAGTTTTGGAGGGTCAAATATTGATCCATCAGCTTGGGAGGATAAG
genomic: CCCTTTTCCTTTACAACTATTCCACTCACCAACTCCATGGAATCTTTGAGgtgtgttaag ... gtttgttcagGCTGCAAGTTTTGGAGGGTCAAATATTGATCCATCAGCTTGGGAGGATAAG
EST: gi|193371017|gb|FK335354.1|FK335354
EST:     CCCTTTTCCTTTACAACTATTCCACTCACCAACTCCATGGAATCTTTGAG                         GCTGCAAGTTTTGGAGGGTCAAATATTGATCCATCAGCTTGGGAGGATAAG
genomic: CCCTTTTCCTTTACAACTATTCCACTCACCAACTCCATGGAATCTTTGAGgtgtgttaag ... gtttgttcagGCTGCAAGTTTTGGAGGGTCAAATATTGATCCATCAGCTTGGGAGGATAAG
EST: gi|254313599|gb|GR831228.1|GR831228
EST:     CCCTTTTCCTTTACA-CTATTCCACTCACCAACTCCATGGAATCTTTGAG                         -CTGCAAGTTTTGGAGGGTCAAATATTGAT
genomic: CCCTTTTCCTTTACAACTATTCCACTCACCAACTCCATGGAATCTTTGAGgtgtgttaag ... gtttgttcagGCTGCAAGTTTTGGAGGGTCAAATATTGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgttttgaatacttttttggaattaactcataatatgtggtggggtttgttcagGCTGCAAGTTTTGGAGGGTCAAATATTGATCCATCAGCTTGGGAGGATAAGAAGTGCCCTGGTGAATCTCGTTTCCCCGCTCAGGTAACACTGTAATCCA
                     aattaac  putative branch site (score: 2)
                                              tttgttc  putative PPT
                     aattaactcataatat  TA-rich tract