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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcgaaagagggatttggttggtgcttttatatctgaattagattttggttcaggataatgtgaaagtttcctgattattgaccttattgtctttctacagTGGACATAATTTCAGCTATTGAATTTGACAAGTCCGGTGATCATCTTGCTACTGGTGATCGGGGTGGTCGAGTGGTTCTCTTTGAGAGAACAGATACAAA

Basic information

species Glycine max
transcript GLYMA13G42800.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G42800.2 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G069631_T02 (Zea mays), 3'ss of exon 1
----gcgaaagagggatttggttggtgcttttatatctgaattagattt-tggttcaggataatgtgaaagtttcctgattattgaccttattgtctttctacagTGGACATAATTTCAGCTATTGAATTTGACAAGTCCGGTGATCATCTTGCTACTGGTGATCGGGGTGGTCGAGTGGTTCTCTTTGAGAGAACAGATACAAA
    | |        ||||   | |   |||  | | |    | ||||| |    |||   |||  |   || || |||| | |   ||   ||| |     ||||||||||||| || || ||||| |||||||| || ||  |||||||||||||||| ||| | ||||| || |||||| | || || |||||||| |    
tttagtgtcttgttcatttcacttgatatttgttgtgtcggcttgatttgttcgccagctaaatcagtttgtatcttgatcagtatgctacatgttt-----cagTGGACATAATATCTGCAATTGAGTTTGACAAATCTGGGAATCATCTTGCTACTGGAGATAGAGGTGGACGTGTGGTTTTGTTCGAAAGAACAGACATTGC

upper sequence: GLYMA13G42800.2 (Glycine max), 3'ss of exon 1
lower sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 1
-------gcgaaagagggatttggttggtgcttttatatctgaattagattttggttcaggataatgtgaaagtttcctgattattgaccttat-tgtctttctacagTGGACATAATTTCAGCTATTGAATTTGACAAGTCCGGTGATCATCTTGCTACTGGTGATCGGGGTGGTCGAGTGGTTCTCTTTGAGAGAACAGATACAAA
         | ||| | | |||  || |||  | |||   || || | || |     |  |||    |   | |||| |   |  | |  |  | | || || | |||| || || ||||| || ||||| ||||| || || ||||| || ||||||||||||||||| || || || |||||||| |||||||| || ||||||||
actttgttgggaagtgtggtttttttagtgtatgtattgttggatgaaatctg----cgagat----tcctattttctttgcttctaatgtggtgtttcattttgcagTTGATATTATTTCTGCAATTGAGTTTGATAAATCTGGTGACCACCTTGCTACTGGTGATCGTGGGGGCCGGGTGGTTCTATTTGAGAGGACTGATACAAA
















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|14258469|gb|BG881377.1|BG881377
EST:     ATTTTCGCAGGTCTTCGGAGAACGCACGGCAGGGGAAGAGGTTCAGGAAG                         TGGACATAATTTCAGCTATTGAATTTGACAAGTCCGGTGATCATCTTGCTA
genomic: ATTTTCGCAGGTCTTCGGAGAACGCACGGCAGGGGAAGAGGTTCAGGAAGgtaattgccc ... ctttctacagTGGACATAATTTCAGCTATTGAATTTGACAAGTCCGGTGATCATCTTGCTA
EST: gi|15286432|gb|BI470323.1|BI470323
EST:     ATTTTCGCAGGTCTTCGGAGAACGCACGGCAGGGGAAGAGGTTCAGGAAG                         TGGACATAATTTCAGCTATTGAATTTGACAAGTCCGGTGATCATCTTGCTA
genomic: ATTTTCGCAGGTCTTCGGAGAACGCACGGCAGGGGAAGAGGTTCAGGAAGgtaattgccc ... ctttctacagTGGACATAATTTCAGCTATTGAATTTGACAAGTCCGGTGATCATCTTGCTA
EST: gi|193333352|gb|FK300385.1|FK300385
EST:     CTTCGGAGAACGCACGGCAGGGGAAGAGGTTCAGGAAG                         TGGACATAATTTCAGCTATTGAATTTGACAAGTCCGGTGATCATCTTGCTA
genomic: CTTCGGAGAACGCACGGCAGGGGAAGAGGTTCAGGAAGgtaattgccc ... ctttctacagTGGACATAATTTCAGCTATTGAATTTGACAAGTCCGGTGATCATCTTGCTA
EST: gi|213605094|gb|DB956399.1|DB956399
EST:     ATTTTCGCAGGTCTTCGGAGAACGCACGGCAGGGGAAGAGGTTCAGGAAG                         TGGACATAATTTCAGCTATTGAATTTGACAAGTCCGGTGATCATCTTGCTA
genomic: ATTTTCGCAGGTCTTCGGAGAACGCACGGCAGGGGAAGAGGTTCAGGAAGgtaattgccc ... ctttctacagTGGACATAATTTCAGCTATTGAATTTGACAAGTCCGGTGATCATCTTGCTA
EST: gi|193609154|gb|FK563908.1|FK563908
EST:     ATTTTCGCAGGTCTTCGGAGAACGCACGGCAGGGGAAGAGGTTCAGGAAG                         TGGACATAATTTCAGCTATTGAATTTGACAAGTCCGGTGATCATCTTGCTA
genomic: ATTTTCGCAGGTCTTCGGAGAACGCACGGCAGGGGAAGAGGTTCAGGAAGgtaattgccc ... ctttctacagTGGACATAATTTCAGCTATTGAATTTGACAAGTCCGGTGATCATCTTGCTA
EST: gi|209700206|gb|BW656297.1|BW656297
EST:     ATTTTCGCAGGTCTTCGGAGAACGCACGGCAGGGGAAGAGGTTCAGGAAG                         TGGACATAATTTCAGCTATTGAATTTGACAAGTCCGGTGATCATCTTGCTA
genomic: ATTTTCGCAGGTCTTCGGAGAACGCACGGCAGGGGAAGAGGTTCAGGAAGgtaattgccc ... ctttctacagTGGACATAATTTCAGCTATTGAATTTGACAAGTCCGGTGATCATCTTGCTA
EST: gi|213614308|gb|DB958612.1|DB958612
EST:     ATTTTCGCAGGTCTTCGGAGAACGCACGGCAGGGGAAGAGGTTCAGGAAG                         TGGACATAATTTCAGCTATTGAATTTGACAAGTCCGGTGATCATCTTGCTA
genomic: ATTTTCGCAGGTCTTCGGAGAACGCACGGCAGGGGAAGAGGTTCAGGAAGgtaattgccc ... ctttctacagTGGACATAATTTCAGCTATTGAATTTGACAAGTCCGGTGATCATCTTGCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggttcaggataatgtgaaagtttcctgattattgaccttattgtctttctacagTGGACATAATTTCAGCTATTGAATTTGACAAGTCCGGTGATCATCTTGCTACTGGTGATCGGGGTGGTCGAGTGGTTCTCTTTGAGAGAACAGATACAAA
                              tattgac  putative branch site (score: 2)
                                    ccttattgtctttct  CT-rich tract
                          tgattatt  TA-rich tract