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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attttgtgaccagagacctcaagaaatggttagtagttgcatttaattctcgtattttaatttatgattcatttatttctctaacgtgcaaaattttcagAGCAATGGATTTCTTAGTGGCATTATTCCAAAACTTAATTGAGCATGCAGATTGGTCAATGTCACAAGCCTGTACAGATTCCTATAACAAGACTCTAAAG

Basic information

species Glycine max
transcript GLYMA20G34980.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G34980.1 (Glycine max), 3'ss of exon 5
lower sequence: AT2G33470.2 (Arabidopsis thaliana), 3'ss of exon 4
attttgtgaccagagacctcaagaaatggttagtagttgcatttaattctcgtattttaatttat--gattcatttatttctctaacgtgcaaaattttcagAGCAATGGATTTCTTAGTGGCATTATTCCAAAACTTAATTGAGCATGCAGATTGGTCAATGTCACAAGCCTGTACAGATTCCTATAACAAGACTCTAAAG
           |  ||   ||| |  |    | ||    | |||| |||    |    |  || |   |  ||| ||| || |  | | |  ||  ||||||||||||||||||||||||||   | |||| ||||||  | |  |||  ||| ||||||||| ||||||| ||| | || || ||  | || || || |||
--------gtaaacgatgacaacatgtcaacaatacacacctttatttcgaagagagcagcttctcaaaaccatatatatcacctatgagtgaatctttcagAGCAATGGATTTCTTAGTGGAGCTGTTCCGAAACTTGGTAGCACATCAAGACTGGTCAATGCCACAAGCTTGTGCTGACTCATACCAAAAAACACTCAAG
















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|9898873|gb|BE607841.1|BE607841
EST:     ACGGCTAAGTCATCATCCAGTTGTACCAATGGACTTCTTTGGCTTACAAG                         AGCAATGGATTTCTTAGTGGCATTATTCCAAAACTTAATTGAGCATGCAGA
genomic: ACGGCTAAGTCATCATCCAGTTGTACCAATGGACTTCTTTGGCTTACAAGgtaaagaaca ... aaattttcagAGCAATGGATTTCTTAGTGGCATTATTCCAAAACTTAATTGAGCATGCAGA
EST: gi|58015415|gb|CX702157.1|CX702157
EST:     ACGGCTAAGTCATCATCCAGTTGTACCAATGGACTTCTTTGGCTTACAAG                         AGCAATGGATTTCTTAGTGGCATTATTCCAAAACTTAATTGAGCATGCAGA
genomic: ACGGCTAAGTCATCATCCAGTTGTACCAATGGACTTCTTTGGCTTACAAGgtaaagaaca ... aaattttcagAGCAATGGATTTCTTAGTGGCATTATTCCAAAACTTAATTGAGCATGCAGA
EST: gi|6228232|gb|AW156831.1|AW156831
EST:     CTTCTTTGGCTTACAAG                         AGCAATGGATTTCTTAGTGGCATTATTCCAAAACTTAATTGAGCATGCAGA
genomic: CTTCTTTGGCTTACAAGgtaaagaaca ... aaattttcagAGCAATGGATTTCTTAGTGGCATTATTCCAAAACTTAATTGAGCATGCAGA
EST: gi|192304253|gb|FG993537.1|FG993537
EST:     ACGGCTAAGTCATCATCCAGTTGTACCAATGGACTTCTTTGGCTTACAAG                         AGCAATGGATTTCTTAGTGGCATTATTCCAAAACCTAATTGAGCATGCAGA
genomic: ACGGCTAAGTCATCATCCAGTTGTACCAATGGACTTCTTTGGCTTACAAGgtaaagaaca ... aaattttcagAGCAATGGATTTCTTAGTGGCATTATTCCAAAACTTAATTGAGCATGCAGA
EST: gi|58015688|gb|CX702430.1|CX702430
EST:     ACGGCTAAGTCATCATCCAGTTGTACCAATGGACTTCTTTGGCTTACAAG                         AGCAATGGATTTCTTAGTGGCATTATTCCAAAACTTAATTGAGCATGCAGA
genomic: ACGGCTAAGTCATCATCCAGTTGTACCAATGGACTTCTTTGGCTTACAAGgtaaagaaca ... aaattttcagAGCAATGGATTTCTTAGTGGCATTATTCCAAAACTTAATTGAGCATGCAGA
EST: gi|9984695|gb|BE658803.1|BE658803
EST:     CTTCNTTGGCTTACAAG                         AGCAATGGATTTNTTAGTGNNATTATTCCAAAACTTAATTGAGCATGCAGA
genomic: CTTCTTTGGCTTACAAGgtaaagaaca ... aaattttcagAGCAATGGATTTCTTAGTGGCATTATTCCAAAACTTAATTGAGCATGCAGA
EST: gi|151400774|gb|EV270588.1|EV270588
EST:     ACGGCTAAGTCATCATCCAGTTGTACCAATGGACTTCTTTGGCTTACAAG                         AGCAATGGATTTCTTAGTGGCATTATTCCAAAACTTAATTGAGCATGCAGA
genomic: ACGGCTAAGTCATCATCCAGTTGTACCAATGGACTTCTTTGGCTTACAAGgtaaagaaca ... aaattttcagAGCAATGGATTTCTTAGTGGCATTATTCCAAAACTTAATTGAGCATGCAGA
EST: gi|192304254|gb|FG993538.1|FG993538
EST:     TCATCATCCAGTTGTACCAATGGACTTCTTTGGCTTACAAG                         AGCAATGGATTTCTTAGTGGCATTATTCCAAAACCTAATTGAGCATGCAGA
genomic: TCATCATCCAGTTGTACCAATGGACTTCTTTGGCTTACAAGgtaaagaaca ... aaattttcagAGCAATGGATTTCTTAGTGGCATTATTCCAAAACTTAATTGAGCATGCAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attctcgtattttaatttatgattcatttatttctctaacgtgcaaaattttcagAGCAATGGATTTCTTAGTGGCATTATTCCAAAACTTAATTGAGCATGCAGATTGGTCAATGTCACAAGCCTGTACAGATTCCTATAACAAGACTCTAAAG
                                 ctctaac  putative branch site (score: 2)
                                                ttttc  putative PPT
       tattttaatttatgat  TA-rich tract