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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttggattcttgattggctgttcctatgcttttctttcttttgttacttacacttgttgcatatcagGCATGCAGTTCAACTGTTATCACCTGCCAGCATTGTTGCAAAAATGAATGGCCGAGACAACATCTGCAAG

Basic information

species Glycine max
transcript GLYMA08G21830.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G21830.1 (Glycine max), 3'ss of exon 10
lower sequence: AT5G22330.1 (Arabidopsis thaliana), 3'ss of exon 10
--gtttggattcttgattggctgttcctatgcttttctttc---ttttgttacttacacttgttgcata---------tcagGCATGCAGTTCAACTGTTATCACCTGCCAGCATTGTTGCAAAAATGAATGGCCGAGACAACATCTGCAAG
    |   ||  ||| ||  ||   |  |   | |  |      | |   |||| | || | ||   |          ||||||| || || || ||  | || |||||||||||||| || |||||||||||||| ||||| || ||||||
gtactgtcatcattgcttttctaagcaaaatttctgttcgtgaatctaaatactaaaaccttttttgtgctttcactctcagGCACGCTGTGCAGCTTCTGTCTCCTGCCAGCATTGTAGCGAAAATGAATGGCCGTGACAATATTTGCAAG

upper sequence: GLYMA08G21830.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv06s0004g02910.t01 (Vitis vinifera), 3'ss of exon 10
-----gtttggattcttgattggctgt--------tccta--tgcttttctttcttttgttacttaca------cttgttgcat-atcagGCATGCAGTTCAACTGTTATCACCTGCCAGCATTGTTGCAAAAATGAATGGCCGAGACAACATCTGCAAG
      |||| ||| |  ||   ||||        |||||  | |  ||| | |  |   |||| | |      |||  ||    ||||||||||||||||| || ||||||||||| |||||| | || |  |||||||| ||||||||||| ||||||
gtctgatttgcattttacatattctgtacacaggatcctagctacccttcctcccatgaatactcaaatctaatcttaatgttccatcagGCATGCAGTTCAGCTCTTATCACCTGCTAGCATTATGGCCAGGATGAATGGTCGAGACAACATTTGCAAG
















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|22930082|gb|BU547221.1|BU547221
EST:     GAAGAAAGTTTAGCTTTCCTTGGGGAGATTGGACAACAAACATCTTTAAG                         GCATGCAGTTCAACTGTTATCACCTGCCAGCATTGTTGCAAAAATGAATGG
genomic: GAAGAAAGTTTAGCTTTCCTTGGGGAGATTGGACAACAAACATCTTTAAGgtttggattc ... tgcatatcagGCATGCAGTTCAACTGTTATCACCTGCCAGCATTGTTGCAAAAATGAATGG
EST: gi|213600069|gb|DB976028.1|DB976028
EST:     GAAGAAAGTTTAGCTTTCCTTGGGGAGATTGGACAACAAACATCTTTAAG                         GCATGCAGTTCAACTGTT-TCCACCTGCCAGCATTGTTGCAAAAATGAATG
genomic: GAAGAAAGTTTAGCTTTCCTTGGGGAGATTGGACAACAAACATCTTTAAGgtttggattc ... tgcatatcagGCATGCAGTTCAACTGTTATC-ACCTGCCAGCATTGTTGCAAAAATGAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attggctgttcctatgcttttctttcttttgttacttacacttgttgcatatcagGCATGCAGTTCAACTGTTATCACCTGCCAGCATTGTTGCAAAAATGAATGGCCGAGACAACATCTGCAAG
                                tacttac  putative branch site (score: 1)
                 ttttcttt  TA-rich tract