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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaattgcatttaggatctatgtctctctgcttaacttcaaaggtgttgtttcctttgtctcatgttttatttttttcacttgtatgttaatcgtgtgcagGTCCTTATCAAGGTGGTGTGTGGAAAGTAAGGGTGGATCTACCTGATGCCTATCCTTATAAGTCTCCATCTATTGGCTTTGTCAACAAAATTTTCCATCC

Basic information

species Glycine max
transcript GLYMA08G01940.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G01940.3 (Glycine max), 3'ss of exon 2
lower sequence: AT5G41340.1 (Arabidopsis thaliana), 3'ss of exon 2
---gaattgcatttaggatctat---gtctctctgct-taacttcaaaggtgttgtttcctttgtctcatgttttatttttttcacttgtatgttaatcgtgtgcagGTCCTTATCAAGGTGGTGTGTGGAAAGTAAGGGTGGATCTACCTGATGCCTATCCTTATAAGTCTCCATCTATTGGCTTTGTCAACAAAATTTTCCATCC
   |   | |    | | ||  |   |   ||| | | | | ||   | |   ||||    ||     ||  ||| |   ||| |  ||| ||||  |  |    |||||  |||||||| |||||||||||  |||| || || || || ||||| ||||||||||| ||||||||| |||| ||  | |  |||||||  |||||
taggcgcttcggcgaagttcggttgggatactcgggtgttagttgtgaagaactgtt---gttaaactattatttgtgggtttaatgtgtgtgttggtgat----agGTCTCTATCAAGGAGGTGTGTGGAAGATAAGAGTTGAGCTTCCAGATGCTTATCCTTATAAATCTCCATCTGTTGGTTTCATTACTAAAATTTATCATCC

upper sequence: GLYMA08G01940.3 (Glycine max), 3'ss of exon 2
lower sequence: AT1G63800.1 (Arabidopsis thaliana), 3'ss of exon 2
------------------------------------------------------------------------------gaattgcatttaggatctatgtctctctgcttaacttcaaaggtgttgtttcctttgtctcatgttttatttttttcacttgtatgttaatcgtgtgcagGTCCTTATCAAGGTGGTGTGTGGAAAGTAAGGGTGGATCTACCTGATGCCTATCCTTATAAGTCTCCATCTATTGGCTTTGTCAACAAAATTTTCCATCC
                                                                              ||    |||    |   | ||| ||  |  | ||||| |   || |    |  ||  | |   ||  | || | |     ||| |||  |   ||  |||||   ||| | || |||||||||||  |||| || || || |||||||| ||||||||||| ||||||||| |||| ||  | | |||||| | ||| ||
gtaagtaactcaattcgtcccgtgaataatttaaatcatagagttttgattctgttttttcttgttcttgctgctgatgatgatcatcatagggttttgtgtcaat-ttcaactt-atcagtatcaacttgttaatttttggtgattttatctctgtgtgtttgt--actatggacagGTATATATGAGGGAGGTGTGTGGAAGATAAGAGTTGAACTTCCTGATGCTTATCCTTATAAATCTCCATCTGTTGGTTTCATTACCAAAATATACCACCC
















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|298182580|gb|HO031315.1|HO031315
EST:     CAACGATGGCATGCAAGAGTTCTTTGTGGAATTCCACGGACCCAAAGACA                         GTCCTTATCAAGGTGGTGTGTGGAAAGTAAGGGTGGATCTACCTGATGCCT
genomic: CAACGATGGCATGCAAGAGTTCTTTGTGGAATTCCACGGACCCAAAGACAgtaaattttt ... tcgtgtgcagGTCCTTATCAAGGTGGTGTGTGGAAAGTAAGGGTGGATCTACCTGATGCCT
EST: gi|18039609|gb|BM307903.1|BM307903
EST:     CAACGATGGCATGCAAGAGTTCTTTGTGGAATTCCACGGACCCAAAGACA                         GTCCTTATCAAGGTGGTGTGTGGAAAGTAAGGGTGGATCTACCTGATGCCT
genomic: CAACGATGGCATGCAAGAGTTCTTTGTGGAATTCCACGGACCCAAAGACAgtaaattttt ... tcgtgtgcagGTCCTTATCAAGGTGGTGTGTGGAAAGTAAGGGTGGATCTACCTGATGCCT
EST: gi|193562259|gb|FK521268.1|FK521268
EST:     CAACGATGGCATGCAAGAGTTCTTTGTGGAATTCCACGGACCCAAAGACA                         GTCCTTATCAAGGTGGTGTGTGGAAAGTAAGGGTGGATCTACCTGATGCCT
genomic: CAACGATGGCATGCAAGAGTTCTTTGTGGAATTCCACGGACCCAAAGACAgtaaattttt ... tcgtgtgcagGTCCTTATCAAGGTGGTGTGTGGAAAGTAAGGGTGGATCTACCTGATGCCT
EST: gi|193681729|gb|FK620903.1|FK620903
EST:     CAACGATGGCATGCAAGAGTTCTTTGTGGAATTCCACGGACCCAAAGACA                         GTCCTTATCAAGGTGGTGTGTGGAAAGTAAGGGTGGATCTACCTGATGCCT
genomic: CAACGATGGCATGCAAGAGTTCTTTGTGGAATTCCACGGACCCAAAGACAgtaaattttt ... tcgtgtgcagGTCCTTATCAAGGTGGTGTGTGGAAAGTAAGGGTGGATCTACCTGATGCCT
EST: gi|192324802|gb|FK016873.1|FK016873
EST:     CAACGATGGCATGCAAGAGTTCTTTGTGGAATTCCACGGACCCAAAGACA                         GTCCTTATCAAGGTGGTGTGTGGAAAGTAAGGGTGGATCTACCTGATGCCT
genomic: CAACGATGGCATGCAAGAGTTCTTTGTGGAATTCCACGGACCCAAAGACAgtaaattttt ... tcgtgtgcagGTCCTTATCAAGGTGGTGTGTGGAAAGTAAGGGTGGATCTACCTGATGCCT
EST: gi|298198506|gb|HO040045.1|HO040045
EST:     CAACGATGGCATGCGAGAGTTCTTTGTGGAATTCCACGGACCCAAAGACA                         GTCCTTATCAAGGTGGTGTGTGGAAAGTAAGGGTGGATCTACCTGATGCCT
genomic: CAACGATGGCATGCAAGAGTTCTTTGTGGAATTCCACGGACCCAAAGACAgtaaattttt ... tcgtgtgcagGTCCTTATCAAGGTGGTGTGTGGAAAGTAAGGGTGGATCTACCTGATGCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtttcctttgtctcatgttttatttttttcacttgtatgttaatcgtgtgcagGTCCTTATCAAGGTGGTGTGTGGAAAGTAAGGGTGGATCTACCTGATGCCTATCCTTATAAGTCTCCATCTATTGGCTTTGTCAACAAAATTTTCCATCC
                                       tgttaat  putative branch site (score: 3)
                   ttttatttttttcact  TA-rich tract