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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgaagatacactgtcttctttcttgtttttttttttatttgctttgctgggaagatgtttattgtcaactgatgacttttgatctgcacagGTTCTGTGGGATAAGAAACTCAAGACAATTGTTAACAACGAGAGCTCAGAGATAATCCGCATGTTTAATACTGAATTCAATAATATTGCAGAAAACCCCA

Basic information

species Glycine max
transcript GLYMA20G02490.3
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G02490.3 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os02g21460.1 (Oryza sativa), 3'ss of exon 3
--------------gtatgaagatacactgtcttctttcttgtttttttttttatttgctttgctgggaagatgtttattgtcaactgatgacttttgat-ctgcacagGTTCTGTGGGATAAGAAACTCAAGACAATTGTTAACAACGAGAGCTCAGAGATAATCCGCATGTTTAATACTGAATTCAATAATATTGCAGAAAACCCCA
               | ||||  |      ||   ||      |||  | || |  |    |      ||   | ||  | |       |   || || | |    |||||||||||||| ||| | ||||||||  | || ||||| |||||||||||||| ||||| ||| | || ||||| |||||  | || ||| | || ||  
gtgagtcgcctgagctctgaacctgggg-atcggattcaagaatttcctcttcacatttcctatgaacaattggattgatctttgtcattttgttgtgttgcctttcagGTTCTGTGGGACAAGCAGCTCAAGACTGTGGTGAACAATGAGAGCTCAGAGATCATCCGAATGCTCAACACTGAGTTCAACGAGATCGCAAAGAATCCTG

upper sequence: GLYMA20G02490.3 (Glycine max), 3'ss of exon 3
lower sequence: AT4G19880.2 (Arabidopsis thaliana), 3'ss of exon 3
gtatgaagatacactgtcttctttcttgtttttttttttatttgctttgctgggaagatgtttattgtcaactgatgacttttgatctgcac---agGTTCTGTGGGATAAGAAACTCAAGACAATTGTTAACAACGAGAGCTCAGAGATAATCCGCATGTTTAATACTGAATTCAATAATATTGCAGAAAACCCCA
         ||     | |   ||||   | | ||||   | |  ||   | ||||| |  ||| |    | | |||| ||||| | |  |    ||||||||||||||||||| ||||| ||  ||||||||||||||||  |||| |||||||| ||||| || ||||| |||||| ||||||| | ||| ||  
--------gtaagtcttttggcttctcaatgtcttttaagtctctttcagtcggaag-tagttactagttagtcatgagttttggtttttatgttagGTTCTGTGGGATAAGAAGCTCAAAACTGTTGTTAACAACGAGAGTGCAGAAATAATCCGGATGTTCAACACTGAGTTCAATCATATTGCGGGAAATCCTG

upper sequence: GLYMA20G02490.3 (Glycine max), 3'ss of exon 3
lower sequence: AT5G44990.1 (Arabidopsis thaliana), 3'ss of exon 3
-----------gtatgaagatacactgtcttctttcttgtttttttttttatttgctttgc-tgggaagatgtttattgtcaactgatgactt--ttgatctgcacagGTTCTGTGGGATAAGAAACTCAAGACAATTGTTAACAACGAGAGCTCAGAGATAATCCGCATGTTTAATACTGAATTCAATAATATTGCAGAAAACCCCA
             || | | |    | |  ||||   | || |||| ||   |  ||   | |     ||| ||||  |  |  || ||  ||  ||| | |    ||||||| ||||||||||| || ||||| || |||||||| |||||||| |||||| |||| ||||| || || || |||||| || |||||||||||||  
gtaagttcttttaatcatggtgtggtctaatcttaagtcttattttgttacgtcactaaacattttcggatatttagagata-ttgttggtttctttgtttttggtagGTTCTTTGGGATAAGAAGCTTAAGACTATAGTTAACAATGAGAGCTCTGAGATACTCCGAATGTTCAACACCGAGTTCAATCATGTTGCAGAAAACCCTT

upper sequence: GLYMA20G02490.3 (Glycine max), 3'ss of exon 3
lower sequence: AT5G45020.2 (Arabidopsis thaliana), 3'ss of exon 3
gtatgaagatacactgtcttctttcttgtttttttttttat-ttgctttgctgggaagatgtttattgtcaactgatgacttttgatctgcacagGTTCTGTGGGATAAGAAACTCAAGACAATTGTTAACAACGAGAGCTCAGAGATAATCCGCATGTTTAATACTGAATTCAATAATATTGCAGAAAACCCCA-
         ||   | |  ||| | | ||    | ||| || || |||||         ||||| |||  ||    ||  || | ||      ||||||| ||||||||||| || |||||  |||||||||| ||||| |||||||||||||| ||||| || ||||| ||||||  |||||| |||||||||  
--------gtaagttttgatctctttggtgaactctttaatctttctttgtcc------tgtttcttg--aatgtttgttttgttattatgttagGTTCTTTGGGATAAGAAGCTTAAGACTGTTGTTAACAATGAGAGTTCAGAGATAATCCGGATGTTCAACACTGAGTTCAATGGTATTGC-GAAAACCCCGT

upper sequence: GLYMA20G02490.3 (Glycine max), 3'ss of exon 3
lower sequence: Vv01s0011g01900.t01 (Vitis vinifera), 3'ss of exon 4
gtatgaagatacactgtcttctttcttgtttttttttttatt----tgctttgctgggaagatgtttattg--tcaactgatga-cttttgatctgc-acagGTTCTGTGGGATAAGAAACTCAAGACAATTGTTAACAACGAGAGCTCAGAGATAATCCGCATGTTTAATACTGAATTCAATAATATTGCAGAAAACCCCA
||||| |  |    ||||  |   |   |||||   ||| |       ||||  || |  ||  | | |||  |||  |||||| | | || | ||  ||||||||| ||||||||||| ||||| |||||||| ||||| ||||| |||||||||||||||||||| ||||||||||||||| |||| ||||| || ||  
gtatgtatttttcatgtcaaccagccattttttccgtttctcatagctcttttatgtgctgaaatctcttgaatcatatgatgaacgtgtgctttgtgacagGTTCTATGGGATAAGAAGCTCAAAACAATTGTGAACAATGAGAGTTCAGAGATAATCCGCATGTTCAATACTGAATTCAATGATATAGCAGAGAATCCAT

upper sequence: GLYMA20G02490.3 (Glycine max), 3'ss of exon 3
lower sequence: Vv01s0011g01890.t01 (Vitis vinifera), 3'ss of exon 4
----gtatga---agatacactgtcttctttcttgtttttttttttatttgctttgctgggaagatgtttattgtcaactgatgacttttgatctgcacagGTTCTGTGGGATAAGAAACTCAAGACAATTGTTAACAACGAGAGCTCAGAGATAATCCGCATGTTTAATACTGAATTCAATAATATTGCAGAAAACCCCA
    ||||     | ||  |  ||  | |||| | |||  ||  || ||   | || | | |   ||   ||| |  | ||  |   | |  | | |  ||||||| ||||||||||||||||| ||||| || || ||||| || |||||||||||||||||| ||||| ||||||||||| |||| ||||| ||  |  
gtacgtatcgctcacatttatagttctttttcct-tttcattagttcttgattatgtttgaatcttgcaaattattcattggagttctgtttttttcgtagGTTCTATGGGATAAGAAACTCAAAACAATCGTAAATAACGAAAGTTCAGAGATAATCCGCATGCTTAATTCTGAATTCAATGATATGGCAGAGAATGCAG

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|151396239|gb|EV266116.1|EV266116
EST:     AACTTTATGAAATTGCAAGTGAAAACTGTGCCGGAAAGTACACTGTTCCG                         GTTCTGTGGGATAAGAAACTCAAGACAATTGTTAACAACGAGAGCTCAGAG
genomic: AACTTTATGAAATTGCAAGTGAAAACTATGCCGGAAAGTACACTGTTCCGgtatgaagat ... atctgcacagGTTCTGTGGGATAAGAAACTCAAGACAATTGTTAACAACGAGAGCTCAGAG
EST: gi|151404135|gb|EV273945.1|EV273945
EST:     AACTTTATGAAATTGCAAGTGAAAACTATGCCGGAAAGTACACTGTTCCG                         GTTCTGTGGGATAAGAAACTCAAGACAATTGTTAACAACGAGAGCTCAGAG
genomic: AACTTTATGAAATTGCAAGTGAAAACTATGCCGGAAAGTACACTGTTCCGgtatgaagat ... atctgcacagGTTCTGTGGGATAAGAAACTCAAGACAATTGTTAACAACGAGAGCTCAGAG
EST: gi|7639431|gb|AW733754.1|AW733754
EST:     AACTTTATGAAATTGCAAGTGAAAACTATGCCGGAAAGTACACTGTTCCG                         GTTCTGTGGGATAAGAAACTCAAGACAATTGTTAACAACGAGAGCTCAGAG
genomic: AACTTTATGAAATTGCAAGTGAAAACTATGCCGGAAAGTACACTGTTCCGgtatgaagat ... atctgcacagGTTCTGTGGGATAAGAAACTCAAGACAATTGTTAACAACGAGAGCTCAGAG
EST: gi|213588695|gb|DB957580.1|DB957580
EST:     AACTTTATGAAATTGCAAGTGAAAACTATGCCGGAAAGTACACTGTTCCG                         GTTCTGTGGGATAAGAAACTCAAGACAATTGTTAACAACGAGAGCTCAGAG
genomic: AACTTTATGAAATTGCAAGTGAAAACTATGCCGGAAAGTACACTGTTCCGgtatgaagat ... atctgcacagGTTCTGTGGGATAAGAAACTCAAGACAATTGTTAACAACGAGAGCTCAGAG
EST: gi|209728829|gb|BW655471.1|BW655471
EST:     AACTTTATGAAATTGCAAGTGAAAACTATGCCGGAAAGTACACTGTTCCG                         GTTCTGTGGGATAAGAAACTCAAGACAATTGTTAACAACGAGAGCTCAGAG
genomic: AACTTTATGAAATTGCAAGTGAAAACTATGCCGGAAAGTACACTGTTCCGgtatgaagat ... atctgcacagGTTCTGTGGGATAAGAAACTCAAGACAATTGTTAACAACGAGAGCTCAGAG
EST: gi|298199221|gb|HO042584.1|HO042584
EST:     AACTTTATGAAATTGCAAGTGAAAACTATGCCGGAAAGTACACTGTTCCG                         GTTCTGTGGGATAAGAAACTCAAGACAATTGTTAACAACGAGAGCTCAGAG
genomic: AACTTTATGAAATTGCAAGTGAAAACTATGCCGGAAAGTACACTGTTCCGgtatgaagat ... atctgcacagGTTCTGTGGGATAAGAAACTCAAGACAATTGTTAACAACGAGAGCTCAGAG
EST: gi|192307448|gb|FK000776.1|FK000776
EST:     AACTTTATGAAATTGCAAGTGAAAACTATGCCGGAAAGTACACTGTTCCG                         GTTCTGTGGGATAAGAAACTCAAG
genomic: AACTTTATGAAATTGCAAGTGAAAACTATGCCGGAAAGTACACTGTTCCGgtatgaagat ... atctgcacagGTTCTGTGGGATAAGAAACTCAAG
EST: gi|7692666|gb|AW760767.1|AW760767
EST:     AACTTTATGAAATTGCAAGTGAAAACTATGCCGGAAAGTACACTGTTCCG                         GTTCTGTGGGATAAGAAACTCAAGACAATTGTTAACAACGAGAGCTCAGAG
genomic: AACTTTATGAAATTGCAAGTGAAAACTATGCCGGAAAGTACACTGTTCCGgtatgaagat ... atctgcacagGTTCTGTGGGATAAGAAACTCAAGACAATTGTTAACAACGAGAGCTCAGAG
EST: gi|298165802|gb|HO008773.1|HO008773
EST:     AACTTTATGAAATTGCAAGTGAAAACTATGCCGGAAAGTACACTGTTCCG                         GTTCTGTGGGATAAGAAACTCAAGACAATTGTTAACAACGAGAGCTCAGAG
genomic: AACTTTATGAAATTGCAAGTGAAAACTATGCCGGAAAGTACACTGTTCCGgtatgaagat ... atctgcacagGTTCTGTGGGATAAGAAACTCAAGACAATTGTTAACAACGAGAGCTCAGAG
EST: gi|8283063|gb|BE020624.1|BE020624
EST:     AACTTTATGAAATTGCAAGTGAAAACTATGCCGGAAAGTACACTGTTCCG                         GTTCTGTGGGATAAGAAACTCAAGACAATTGTTAACAACGAGAGCTCAGAG
genomic: AACTTTATGAAATTGCAAGTGAAAACTATGCCGGAAAGTACACTGTTCCGgtatgaagat ... atctgcacagGTTCTGTGGGATAAGAAACTCAAGACAATTGTTAACAACGAGAGCTCAGAG
EST: gi|120491353|gb|EH219520.1|EH219520
EST:     AACTTTATGAAATTGCAAGTGAAAACTATGCCGGAAAGTACACTGTTCCG                         GTTCTGTGGGATAAGAAACTCAAGACAATTGTTAACAACGAGAGCTCAGAG
genomic: AACTTTATGAAATTGCAAGTGAAAACTATGCCGGAAAGTACACTGTTCCGgtatgaagat ... atctgcacagGTTCTGTGGGATAAGAAACTCAAGACAATTGTTAACAACGAGAGCTCAGAG
EST: gi|192307449|gb|FK000777.1|FK000777
EST:     AACTTTATGAAATTGCAAGTGAAAACTATGCCGGAAAGTACACTGTTCCG                         GTTCTGTGGGATAAGAAACTCAAGACAATTGTTAACAACGAGAGCTCAGAG
genomic: AACTTTATGAAATTGCAAGTGAAAACTATGCCGGAAAGTACACTGTTCCGgtatgaagat ... atctgcacagGTTCTGTGGGATAAGAAACTCAAGACAATTGTTAACAACGAGAGCTCAGAG
EST: gi|9902544|gb|BE611512.1|BE611512
EST:     AACTTTATGAAATTGCAAGTGAAAACTATGCCGGAAAGTACACTGTTCCG                         GTTCTGTGGGATAAGAAACTCAAGACAATTGTTAACAACGAGAGCTCAGAG
genomic: AACTTTATGAAATTGCAAGTGAAAACTATGCCGGAAAGTACACTGTTCCGgtatgaagat ... atctgcacagGTTCTGTGGGATAAGAAACTCAAGACAATTGTTAACAACGAGAGCTCAGAG
EST: gi|298163642|gb|HO012375.1|HO012375
EST:     AACTTTATGAAATTGCAAGTGAAAACTATGCCGGAAAGTACACTGTTCCG                         GTTCTGTGGGATAAGAAACTCAAGACAATTGTTAACAACGAGAGCTCAGAG
genomic: AACTTTATGAAATTGCAAGTGAAAACTATGCCGGAAAGTACACTGTTCCGgtatgaagat ... atctgcacagGTTCTGTGGGATAAGAAACTCAAGACAATTGTTAACAACGAGAGCTCAGAG
EST: gi|15201916|gb|BI425126.1|BI425126
EST:     AACTTTATGAAATTGCAAGTGAAAACTATGCCGGAAAGTACACTGTTCCG                         GTTCTGTGGGATAAGAAACTCAAGACAATTGTTAACAACGAGAGCTCAGAG
genomic: AACTTTATGAAATTGCAAGTGAAAACTATGCCGGAAAGTACACTGTTCCGgtatgaagat ... atctgcacagGTTCTGTGGGATAAGAAACTCAAGACAATTGTTAACAACGAGAGCTCAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttgctttgctgggaagatgtttattgtcaactgatgacttttgatctgcacagGTTCTGTGGGATAAGAAACTCAAGACAATTGTTAACAACGAGAGCTCAGAGATAATCCGCATGTTTAATACTGAATTCAATAATATTGCAGAAAACCCCA
                  atgtttatt  TA-rich tract