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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttaattacagtttggtcatttattacccatttcttgaagatctacttttaatgtcttcaccaaaaggatcttactggatggttctcatcatttttgtcagGTTCGGGATTACATTCATGTTGTTGATTTAGCAGATGGGCACATTGCTGCATTGCTTAAACTAGATGAACCTAATATAGGTATTATTCTAAAGTTTTCTT

Basic information

species Glycine max
transcript GLYMA01G43540.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G43540.2 (Glycine max), 3'ss of exon 5
lower sequence: AT4G23920.1 (Arabidopsis thaliana), 3'ss of exon 5
----------------------------------------------tta-attacagtttg-----gtcatttattacccatttcttgaagatctacttttaat---gtcttcaccaaaaggatcttactggatggttctcatcatttttgtcagGTTCGGGATTACATTCATGTTGTTGATTTAGCAGATGGGCACATTGCTGCATTGCTTAAACTAGATGAACCTAATATAGGTATTATTCTAAAGTTTTCTT
                                              ||| |||||| | |      || || |||||   | |    ||     |||    |||   |  ||     ||  ||| ||| |  ||  || |  |  ||| | ||||||| | ||||||||||||||  | |||||||||||||| ||||| |||||  ||| ||| |||||||| |  || ||                       
gtatgtgacttatgatgtcttatagacaacaaaccatttgacagatttacattacaatcttaaattgtgatatattatggagtatgggagataatacaacgaattgtgaattatattaacagatattattc-atctttgttgt-gtttctttcagGTTAGAGATTACATTCATGTCATGGATTTAGCAGATGGACACATAGCTGCTCTGCGTAAGCTAGATGATCTCAAAATCA---------------------

upper sequence: GLYMA01G43540.2 (Glycine max), 3'ss of exon 5
lower sequence: AT4G10960.1 (Arabidopsis thaliana), 3'ss of exon 5
ttaattacagtttggtcatttattacccatttcttgaagatctacttttaatgtcttcaccaaaaggatcttactggatggttctcatcatttttgtcagGTTCGGGATTACATTCATGTTGTTGATTTAGCAGATGGGCACATTGCTGCATTGCTTAAACTAGATGAACCTAATATAGGTATTATTCTAAAGTTTTCTT
                       ||   | || |     || |  |  |||      ||  || ||| | | |     | | ||||||  ||| | | ||||||| ||||||||||||||| |||||||||| ||||| ||||| || ||  | | ||| ||||| ||    || || |                     
----------------------gtatgtacttgtcttttatgttttcataaaa----caagaagaggttttcaacattttgatctcatgttttgttttagGTTCGAGATTACATTCATGTTATTGATTTAGCTGATGGACACATAGCGGCTCTACGTAAGCTAGAAGATTGCAAGATCG---------------------

upper sequence: GLYMA01G43540.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv02s0025g01560.t01 (Vitis vinifera), 3'ss of exon 5
ttaattacagtttggtcatt-tattacccatttcttgaagatctacttttaatgtcttcaccaaaaggatcttactggatggttctcatc-atttttgtcagGTTCGGGATTACATTCATGTTGTTGATTTAGCAGATGGGCACATTGCTGCATTGCTTAAACTAGATGAACCTAATATAGGTATTATTCTAAAGTTTTCTT
    |   | | | | |||| || | |       ||    |  |    | || |  || |    || ||| | | ||     | || | | |||    |||||| |||||||||||||||||||| ||||||||||||||||||||||| || ||||  || |||    |  |  | ||||                     
-ccttggtaatataggcattatactgcattccagttttccacttttgatcaaaggtttgatgtcaatgatgt-attgatgcttacttacctattcacatcagGTACGGGATTACATTCATGTTGTGGATTTAGCAGATGGGCACATTGCAGCCTTGCACAAGCTACTCAACTCAGAAATAG---------------------

upper sequence: GLYMA01G43540.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv02s0025g01580.t01 (Vitis vinifera), 3'ss of exon 5
---ttaattacagtttggtcatttattacccatttcttgaagatctacttttaatgtcttcaccaaaaggatcttactggatggttctcatcatttttgtcagGTTCGGGATTACATTCATGTTGTTGATTTAGCAGATGGGCACATTGCTGCATTGCTTAAACTAGATGAACCTAATATAGGTATTATTCTAAAGTTTTCTT
   |   | | |      | || |   |  |   | ||     | |    |   | |      ||| |   | ||  ||  |   | |  ||| ||   |||||| || |||||||| |||||||||||||| ||||||||||||||||| || |||   || |||    |  |  | ||||                     
gcttaggtgatataggaattatattgcattctagttttctgcttgtgacctaggttttgatgtcaataatgtgttgatgtttacctattttcactt---tcagGTCCGTGATTACATCCATGTTGTTGATTTGGCAGATGGGCACATTGCAGCTTTGTGCAAGCTATTCAACTCAGAAATAG---------------------

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|209713128|gb|BW653837.1|BW653837
EST:     CTGCACTGACAGTTTTTGGAAATGATTATAATACAAGTGATGGCACTGGG                         GTTCGGGATTACATTCATGTTGTTGATTTAGCAGATGGGCACATTGCTGCA
genomic: CTGCACTGACAGTTTTTGGAAATGATTATAATACAAGTGATGGCACTGGGgtacgctcta ... tttttgtcagGTTCGGGATTACATTCATGTTGTTGATTTAGCAGATGGGCACATTGCTGCA
EST: gi|16349370|gb|BI974965.1|BI974965
EST:     CTGCACTGACAGTTTTTGGAAATGATTATAATACAAGTGATGGCACTGGG                         GTTCGGGATTACATTCATGTTGTTGATTTAGCAGATGGGCACATTGCTGCA
genomic: CTGCACTGACAGTTTTTGGAAATGATTATAATACAAGTGATGGCACTGGGgtacgctcta ... tttttgtcagGTTCGGGATTACATTCATGTTGTTGATTTAGCAGATGGGCACATTGCTGCA
EST: gi|12489618|gb|BG043139.1|BG043139
EST:     CTGCACTGACAGTTTTTGGAAATGATTATAATACAAGTGATGGCACTGGG                         GTTCGGGATTACATTCATGTTGTTGATTTATCAGATGGGCACATTGCTGCA
genomic: CTGCACTGACAGTTTTTGGAAATGATTATAATACAAGTGATGGCACTGGGgtacgctcta ... tttttgtcagGTTCGGGATTACATTCATGTTGTTGATTTAGCAGATGGGCACATTGCTGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttaatgtcttcaccaaaaggatcttactggatggttctcatcatttttgtcagGTTCGGGATTACATTCATGTTGTTGATTTAGCAGATGGGCACATTGCTGCATTGCTTAAACTAGATGAACCTAATATAGGTATTATTCTAAAGTTTTCTT
                      atcttac  putative branch site (score: 3)
                                    ttctcatcattttt  putative PPT
                                         atcattttt  TA-rich tract