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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATGGTACATTTGCAACACCATTGAACCAGAAGGCCCTTGCCCTTGGCGCTGATCTGATTCTGCACTCCTTAACAAAATACATGGGTGGACATCATGATgtaagttggcatgttcaagatttagtttgatggaaaaacaacacaaatatgttacatttcagttgttcagagttaagcgtcaaggagcatttttcctctttcag

Basic information

species Glycine max
transcript GLYMA18G49660.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G49660.1 (Glycine max), 5'ss of exon 6
lower sequence: AT3G01120.1 (Arabidopsis thaliana), 5'ss of exon 6
TGATGGTACATTTGCAACACCATTGAACCAGAAGGCCCTTGCCCTTGGCGCTGATCTGATTCTGCACTCCTTAACAAAATACATGGGTGGACATCATGATgtaagttgg-catgttcaagatttagtttgatggaaaaacaacacaaatatgttacatttcagttgttcagagttaagcgtcaaggagcatttttcc-tctttcag
|||||| || |||||||||||  |||| ||||| |||||||| ||||| ||||||||  |  |||||||    ||||| ||||| || |||||  ||||||| |||    ||||||| | || | ||        |||||| | |||| |    ||      |||||| ||   | |    ||| ||   ||| ||  |  || ||
TGATGGCACCTTTGCAACACCTCTGAATCAGAAAGCCCTTGCTCTTGGTGCTGATCTTGTCGTGCACTCTGCTACAAAGTACATTGGAGGACACAATGATgtgagtaaaacatgttccatatattgt--------aaaacatctcaaa-agagcactcactggttgtttag---ttattaacaaagattgtttctcggtggtttag
















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|208127071|gb|GD922647.1|GD922647
EST:     CTGATCTGATTCTGCACTCCTTAACAAAATACATGGGTGGACATCATGAT                         GCCCTTGGTGGTTGCATAAGTGGTTCAACTAAGGTGGTTTCGCAAATTCGG
genomic: CTGATCTGATTCTGCACTCCTTAACAAAATACATGGGTGGACATCATGATgtaagttggc ... cctctttcagGCCCTTGGTGGTTGCATAAGTGGTTCAACTAAGGTGGTTTCGCAAATTCGG
EST: gi|120492993|gb|EH221160.1|EH221160
EST:     CTGATCTGATTCTGCACTCCTTAACAAAATACATGGGTGGACATCATGAT                         GCCCTTGGTGGTTGCATAAGTGGTTCAACTAAGGTGGTCTCGCAAATTCGG
genomic: CTGATCTGATTCTGCACTCCTTAACAAAATACATGGGTGGACATCATGATgtaagttggc ... cctctttcagGCCCTTGGTGGTTGCATAAGTGGTTCAACTAAGGTGGTTTCGCAAATTCGG
EST: gi|254343496|gb|GR857252.1|GR857252
EST:     CTGATCTGATTCTGCACTCCTTAACAAAATACATGGGTGGACATCATGAT                         GCCCTTGGTGGTTGCATAAGTGGTTCAACTAAAGTGGTTTCGCAAATTCGG
genomic: CTGATCTGATTCTGCACTCCTTAACAAAATACATGGGTGGACATCATGATgtaagttggc ... cctctttcagGCCCTTGGTGGTTGCATAAGTGGTTCAACTAAGGTGGTTTCGCAAATTCGG
EST: gi|24136385|gb|BU926895.1|BU926895
EST:     CTGATCTGATTCTGCACTCCTTAACAAAATACATGGGTGGACATCATGAT                         GCCCTTGGTGGTTGCATAAGTGGTTCAACTAAGGTGGTTTCGCAAATTCGG
genomic: CTGATCTGATTCTGCACTCCTTAACAAAATACATGGGTGGACATCATGATgtaagttggc ... cctctttcagGCCCTTGGTGGTTGCATAAGTGGTTCAACTAAGGTGGTTTCGCAAATTCGG
EST: gi|192322238|gb|FK014134.1|FK014134
EST:     CTGATCTGATTCTGCACTCCTTAACAAAATACATGGGTGGACATCATGAT                         GCCCTTGGTGGTTGCATAAGTGGTTCAACTAAGGTGGTTTCGCAAATTCGG
genomic: CTGATCTGATTCTGCACTCCTTAACAAAATACATGGGTGGACATCATGATgtaagttggc ... cctctttcagGCCCTTGGTGGTTGCATAAGTGGTTCAACTAAGGTGGTTTCGCAAATTCGG
EST: gi|192319773|gb|FK013787.1|FK013787
EST:     CTGATCTGATTCTGCACTCCTTAACAAAATACATGGGTGGACATCATGAT                         GCCCTTGGTGGTTGCATAAGTGGTTCAACTAAGGTGGTTTCGCAAATTCGG
genomic: CTGATCTGATTCTGCACTCCTTAACAAAATACATGGGTGGACATCATGATgtaagttggc ... cctctttcagGCCCTTGGTGGTTGCATAAGTGGTTCAACTAAGGTGGTTTCGCAAATTCGG
EST: gi|37996373|gb|CF807962.1|CF807962
EST:     TGATCTGATTCTGCACTCCTTAACAAAATACCATGGGTGGACATCATGAT                         GCCCTTGGCGGTTGC
genomic: TGATCTGATTCTGCACTCCTTAACAAAATAC-ATGGGTGGACATCATGATgtaagttggc ... cctctttcagGCCCTTGGTGGTTGC
EST: gi|6072565|gb|AW101952.1|AW101952
EST:     CTGATCTGATTCTGCACTCCTTAACAAAATACATGGGTGGACATCATGAT                         GCCCTTGGTGGTTGCATAAGTGGTTCAACTAA
genomic: CTGATCTGATTCTGCACTCCTTAACAAAATACATGGGTGGACATCATGATgtaagttggc ... cctctttcagGCCCTTGGTGGTTGCATAAGTGGTTCAACTAA
EST: gi|21638738|gb|BM139784.1|BM139784
EST:     CTGATCTGATTCTGCACTCCTTAACAAAATACATGGGTGGACATCATGAT                         GCCCTTGGTGGTTGCATAAGTGGCTCAACTAAGGTGGTTTCGCAAATTCGG
genomic: CTGATCTGATTCTGCACTCCTTAACAAAATACATGGGTGGACATCATGATgtaagttggc ... cctctttcagGCCCTTGGTGGTTGCATAAGTGGTTCAACTAAGGTGGTTTCGCAAATTCGG

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGATGGTACATTTGCAACACCATTGAACCAGAAGGCCCTTGCCCTTGGCGCTGATCTGATTCTGCACTCCTTAACAAAATACATGGGTGGACATCATGATgtaagttggcatgttcaagatttagtttgatggaaaaacaacacaaatatgttacatttcagttgttcagagttaagcgtcaaggagcatttttcctctttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA