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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttaagtagaataactacctctactgttgatattgtcacttgttacagttatactggagtttgatattcttgtctaagatgttttctaactcttttagacatgcatttaaatagattgattatctgcaaaatatctgaatgaaattattaattgtctagcatagaacatgtgcttgcagGGAACTTGGGATTGGAATAGTGGCATATAGCCCTCTTGGTCATGGCTTTTTCGCAGGGAAGGCAGCGGTAGAGACTTTGCCTAGTCAGAGCGCACTG

Basic information

species Glycine max
transcript GLYMA10G38890.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G38890.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv05s0020g04130.t01 (Vitis vinifera), 3'ss of exon 4
gtaatttaagtagaataactacctctactgttgatattgtcacttgttacagttatactggagtttgatattcttgtctaagatgttttctaactcttttagacatgcatttaaatagattgattatctgcaaaatatctgaatga--aattattaattgtctagcatagaacatgtgcttgcagGGAACTTGGGATTGGAATAGTGGCATATAGCCCTCTTGGTCATGGCTTTTTCGCAGGGAAGGCAGCGGTAGAGACTTTGCCTAGTCAGAGCGCACTG
         || |  || ||| || || ||||   |||   |        |   | ||     ||| |  || || |  | | ||      | |     |  | | ||      |  ||||||  || |  | |  || | ||| |  || | | |||    |   ||    |   | ||  ||| || ||||| ||||||||||| ||||||||||||||||||| ||| || || |  ||||||||||  || ||||  ||||| | ||||||    |||
---------gttggttatctagctttaatgtttgcattacta--------aaccaaacc----tttaagttttttatacagggtgaagaacagcc----tgaaaaagct----gagggattgagaatat-tacagaatttaaatcatgaactctgaatctcttcttat----ctgttactcacagAGAGCTTGGTATTGGAATAGTAGCATATAGCCCTCTTGGTCGTGGATTCTTTGGTGGGAAGGCAGTTGTGGAGAGCTTGCCCACTCAGAGTATCCTG

upper sequence: GLYMA10G38890.2 (Glycine max), 3'ss of exon 4
lower sequence: PP1S158_112V6.2 (Physcomitrella patens), 3'ss of exon 5
gtaatttaagtagaataactacctctactgttgatattgtcacttgttacagttatactggagtttgatattcttgtctaagatgttttctaactcttttagacatgcatttaaatagattgattatctgcaaaatatctgaatgaaattattaattgtctagcatagaacatgtgcttgcagGGAACTTGGGATTGGAATAGTGGCATATAGCCCTCTTGGTCATGGCTTTTTCGCAGGGAAGGCAGCGGTAGAGACTTTGCCTAGTCAGAGCGCACTG----
                                                                             |  || |  |    || |      ||| | |||  ||||      | |    |  |||  |||  |   | | | | | ||  ||  | | | |       |||||||| ||||| |||||||||||| | |||||||||||||| |  || || ||| | ||||| || |  || ||||   ||      ||   |  |  |    
----------------------------------------------------------------------------accgag-taataatgaaatgacaaggac-tacatc-aaatcttcacactgctagttaaa-gtct--acagattcactgagtggataata-aaaccccacttctgcagGGAGCTTGGAATTGGAATAGTGCCCTATAGCCCTCTTGGGCGAGGATTCTTCTCTGGGAAAGCCGTCGTTGAGAAACTGGAAGAGCAAGAC-TATCGATTC
















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|9899162|gb|BE608189.1|BE608189
EST:     TATTCTTTATGGACCCGTGACATTGAAGAAGAGATTATTCCACTATGCAG                         GGAACTTGGGATTGGAATAGTGGCATATAGCCCTCTTGGTCATGG
genomic: TATTCTTTATGGACCCGTGACATTGAAGAAGAGATTATTCCACTATGCAGgtaatttaag ... gtgcttgcagGGAACTTGGGATTGGAATAGTGGCATATAGCCCTCTTGGTCATGG
EST: gi|9898893|gb|BE607861.1|BE607861
EST:     TATTCTTTATGGACCCGTGACATTGAAGAAGAGATTATTCCACTATGCAG                         GGAACTTGGGATTGGAATAGTGGCATATAGCCCTCTTGGTCATGGCT
genomic: TATTCTTTATGGACCCGTGACATTGAAGAAGAGATTATTCCACTATGCAGgtaatttaag ... gtgcttgcagGGAACTTGGGATTGGAATAGTGGCATATAGCCCTCTTGGTCATGGCT
EST: gi|192323154|gb|FK017035.1|FK017035
EST:     TATTCTTTATGGACCCGTGACATTGAAGAAGAGATTATTCCACTATGCAG                         GGAACTTGGGATTGGAATAGTGGCATATAGCCCTCTTGGTCATGGCTTTTT
genomic: TATTCTTTATGGACCCGTGACATTGAAGAAGAGATTATTCCACTATGCAGgtaatttaag ... gtgcttgcagGGAACTTGGGATTGGAATAGTGGCATATAGCCCTCTTGGTCATGGCTTTTT
EST: gi|151393916|gb|EV263787.1|EV263787
EST:     TATTCTTTATGGACCCGTGACATTGAAGAAGAGATTATTCCACTATGCAG                         G-AACTTGGGATTGGAATAGTGGCATATAGCCCTCTTGGTCAT
genomic: TATTCTTTATGGACCCGTGACATTGAAGAAGAGATTATTCCACTATGCAGgtaatttaag ... gtgcttgcagGGAACTTGGGATTGGAATAGTGGCATATAGCCCTCTTGGTCAT
EST: gi|7232344|gb|AW567701.1|AW567701
EST:     TATTCTTTATGGACCCGTGACATTGAAGAAGAGATTATTCCACTATGCAG                         GGAACTTGGGATTGGAATAGTGGCATATAGCCCTCTTGGTCATGGCTTTTT
genomic: TATTCTTTATGGACCCGTGACATTGAAGAAGAGATTATTCCACTATGCAGgtaatttaag ... gtgcttgcagGGAACTTGGGATTGGAATAGTGGCATATAGCCCTCTTGGTCATGGCTTTTT
EST: gi|22525129|gb|BU083940.1|BU083940
EST:     TATTCTTTATGGACCCGTGACATTGAAGAAGAGATTATTCCACTATGCAG                         GGAACTTGGGATTGGAATAGTGGCATATAGCCCTCTTGGTCATGGCTTTTT
genomic: TATTCTTTATGGACCCGTGACATTGAAGAAGAGATTATTCCACTATGCAGgtaatttaag ... gtgcttgcagGGAACTTGGGATTGGAATAGTGGCATATAGCCCTCTTGGTCATGGCTTTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcaaaatatctgaatgaaattattaattgtctagcatagaacatgtgcttgcagGGAACTTGGGATTGGAATAGTGGCATATAGCCCTCTTGGTCATGGCTTTTTCGCAGGGAAGGCAGCGGTAGAGACTTTGCCTAGTCAGAGCGCACTG
                     tattaat  putative branch site (score: 2)
     aatatctgaatgaaat  TA-rich tract