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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCAGCAGTTCAAGAATTTGGATAAGCTTGTGAAGAGAATAGATGGGGATATTTTGTCCAAATTAGATGGTTCTGCTAAAGCCAGCTCATCAAGTAGAAGgtgaatttgggttttgggaactttgtgtttgtgccctttttttaatgttaatcgggaatgcaaatcttatataactctttgacagtgaatgcttcaagtt...

Basic information

species Glycine max
transcript GLYMA15G17840.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G17840.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv08s0007g01340.t01 (Vitis vinifera), 5'ss of exon 3
---------CTCAGCAGTTCAAGAATTTGGATAAGCTTGTGAAGAGAATAGATGGGGATATTTTGTCCAAATTAGATGGTTCTGCTAAAGCCAGCTCATCAAGTAGAAGgtgaatttgggttttgggaactttgtgtttgtgccctttttttaat--gttaatcgggaatgcaaatcttatataactctttgacagtga-atgcttcaagtt
         ||  |||||||||||||||||||||||| |||||||   | |||  ||| |||||||| |||||  |||||||  || |    | | || || |||  |     | ||||   |   | |  |||   |||   | | ||| || |  |  ||   ||||   |   |||    | | ||||     ||| ||| |       
CCAATTATTCTGGGCAGTTCAAGAATTTGGATAAGCTCGTGAAGACTCTGGATAAGGAGATTTTGTCGAAATTGAATGGTTCATCTGATA--AACCCACCAGgtaataaacttagttggtact---ggatcttgctcttgcaacttctttatactagggaaactaggaacata---cttgggaagcactttatacatgatatggtgtg----
















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|7693170|gb|AW761267.1|AW761267
EST:     ATTTTGTCCAAATTAGATGGTTCTGCTAAAGCCAGCTCATCAAGTAGAAG                         CTCGGAAACAAGTGACAGAACTAGACAAGAGATACCTGACCCTGTTGCTGG
genomic: ATTTTGTCCAAATTAGATGGTTCTGCTAAAGCCAGCTCATCAAGTAGAAGgtgaatttgg ... ttctatacagCTCGGAAACAAGTGACAGAACTAGACAAGAGATACCTGACCCTGTTGCTGG
EST: gi|23728829|gb|BU762478.1|BU762478
EST:     ATTTTGTCCAAATTAGATGGTTCTGCTAAAGCCAGCTCATCAAGTAGAAG                         CTCGGAAACAAGTGACAGAACTAGACAAGAGCTACCTGACCCTGTTGCTGG
genomic: ATTTTGTCCAAATTAGATGGTTCTGCTAAAGCCAGCTCATCAAGTAGAAGgtgaatttgg ... ttctatacagCTCGGAAACAAGTGACAGAACTAGACAAGAGATACCTGACCCTGTTGCTGG
EST: gi|151408833|gb|EV278641.1|EV278641
EST:     ATTTTGTCCAAATTAGATGGTTCTGCTAAAGCCAGCTCATCAAGTAGAAG                         CTCGGAAACAAGTGACAGAACTAGACAAGAGATACCTGACCCTGTTGCTGG
genomic: ATTTTGTCCAAATTAGATGGTTCTGCTAAAGCCAGCTCATCAAGTAGAAGgtgaatttgg ... ttctatacagCTCGGAAACAAGTGACAGAACTAGACAAGAGATACCTGACCCTGTTGCTGG
EST: gi|15204141|gb|BI426909.1|BI426909
EST:     ATTTTGTCCAAATTAGATGGTTCTGCTAAAGCCAGCTCATCAAGTAGAAG                         CTCGGAAACAAGTGACAGAACTAGACAAGAGCTACCTGACCCTGTTGCTGG
genomic: ATTTTGTCCAAATTAGATGGTTCTGCTAAAGCCAGCTCATCAAGTAGAAGgtgaatttgg ... ttctatacagCTCGGAAACAAGTGACAGAACTAGACAAGAGATACCTGACCCTGTTGCTGG
EST: gi|151401061|gb|EV270875.1|EV270875
EST:     ATTTTGTCCAAATTAGATGGTTCTGCTATAGCCAGCTCATCAAGTAGAAG                         CTCGGAAACAAGTGACAGAACTAGACAAGAGATACCTGACCCTGTTGCTGG
genomic: ATTTTGTCCAAATTAGATGGTTCTGCTAAAGCCAGCTCATCAAGTAGAAGgtgaatttgg ... ttctatacagCTCGGAAACAAGTGACAGAACTAGACAAGAGATACCTGACCCTGTTGCTGG
EST: gi|15813617|gb|BI785892.1|BI785892
EST:     ATTTTGTCCAAATTAGATGGTTCTGCTAAAGCCAGCTCATCAAGTAGAAG                         CTCGGAAACAAGTGACAGAACTAGACAAGAGATACCTGACCCTGTTGCTGG
genomic: ATTTTGTCCAAATTAGATGGTTCTGCTAAAGCCAGCTCATCAAGTAGAAGgtgaatttgg ... ttctatacagCTCGGAAACAAGTGACAGAACTAGACAAGAGATACCTGACCCTGTTGCTGG
EST: gi|33389848|gb|CA853055.1|CA853055
EST:     ATTTTGTCCAAATTAGATGGTTCTGCTAAAGCCAGCTCATCAAGTAGAAG                         CTCGGAAACAAGTGACAGAACTAGACAAGAGATACCTGACCCTGTTGCTGG
genomic: ATTTTGTCCAAATTAGATGGTTCTGCTAAAGCCAGCTCATCAAGTAGAAGgtgaatttgg ... ttctatacagCTCGGAAACAAGTGACAGAACTAGACAAGAGATACCTGACCCTGTTGCTGG
EST: gi|24135432|gb|BU925942.1|BU925942
EST:     ATTTTGTCCAAATTAGATGGTTCTGCTAAAGCCAGCTCATCAAGTAGAAG                         CTCGGAAACAAGTGACAGAACTAGACAAGAGCTACCTGACCCTGTTGCTGG
genomic: ATTTTGTCCAAATTAGATGGTTCTGCTAAAGCCAGCTCATCAAGTAGAAGgtgaatttgg ... ttctatacagCTCGGAAACAAGTGACAGAACTAGACAAGAGATACCTGACCCTGTTGCTGG
EST: gi|192300523|gb|FG991505.1|FG991505
EST:     ATTTTGTCCAAATTAGATGGTTCTGCTAAAGCCAGCTCATCAAGTAGAAG                         CTCGGAAACAAGTGACAGAACTAGACAAGAGATACCTGACCCTGTTGCTGG
genomic: ATTTTGTCCAAATTAGATGGTTCTGCTAAAGCCAGCTCATCAAGTAGAAGgtgaatttgg ... ttctatacagCTCGGAAACAAGTGACAGAACTAGACAAGAGATACCTGACCCTGTTGCTGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTCAGCAGTTCAAGAATTTGGATAAGCTTGTGAAGAGAATAGATGGGGATATTTTGTCCAAATTAGATGGTTCTGCTAAAGCCAGCTCATCAAGTAGAAGgtgaatttgggttttgggaactttgtgtttgtgccctttttttaatgttaatcgggaatgcaaatcttatataactctttgacagtgaatgcttcaagtt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA