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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tatattcatgttataactgtcatcatttttattgttgatattattgtattaccttttcattggatgttcgacaagtaactggatgtaatattatctgtagGACGATGAGGTTGCAAATTCATGGTTAAACAATGAAGCAGTCAGGACAGCAATTCATACTGCACAG

Basic information

species Glycine max
transcript GLYMA16G09320.1
intron # 9
splice site 3'
intron type U2

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|151408190|gb|EV277998.1|EV277998
EST:     TACCAACTTGGCCACAACTGATGAATAGTAAATCTGCTCCACCATGCACG                         GACGATGAGGTTGCAAATTCATGGTTAAACAATGAAGCAGTCAGGACAGCA
genomic: TACCAACTTGGCCACAACTGATGAATAGTAAATCTGCTCCACCATGCACGgtatgttgca ... ttatctgtagGACGATGAGGTTGCAAATTCATGGTTAAACAATGAAGCAGTCAGGACAGCA
EST: gi|13479098|gb|BG508441.1|BG508441
EST:     TACCAACTTGGCCACAACTGATGAATAGTAAATCTGCTCCACCATGCACG                         GACGATGAGGTTGCAAATTCATGGTTAAACAATGAAGCAGTCAGGACAGCA
genomic: TACCAACTTGGCCACAACTGATGAATAGTAAATCTGCTCCACCATGCACGgtatgttgca ... ttatctgtagGACGATGAGGTTGCAAATTCATGGTTAAACAATGAAGCAGTCAGGACAGCA
EST: gi|193717070|gb|FK654698.1|FK654698
EST:     TACCAACTTGGCCACAACTGATGAATAGTAAATCTGCTCCACCATGCACG                         GACGATGAGGTTGCAAATTCATGGTTAAACAATGAAGCAGTCAGGACAGCA
genomic: TACCAACTTGGCCACAACTGATGAATAGTAAATCTGCTCCACCATGCACGgtatgttgca ... ttatctgtagGACGATGAGGTTGCAAATTCATGGTTAAACAATGAAGCAGTCAGGACAGCA
EST: gi|57574399|gb|CX547374.1|CX547374
EST:     TACCAACTTGGCCACAACTGATGAATAGTAAATCTGCTCCACCATGCACG                         GACGATGAGGTTGCAAATTCATGGTTAAACAATGAAGCAGTCAGGACAGCA
genomic: TACCAACTTGGCCACAACTGATGAATAGTAAATCTGCTCCACCATGCACGgtatgttgca ... ttatctgtagGACGATGAGGTTGCAAATTCATGGTTAAACAATGAAGCAGTCAGGACAGCA
EST: gi|7589867|gb|AW705632.1|AW705632
EST:     TACCAACTTGGCCACAACTGATGAATAGTAAATCTGCTCCACCATGCACG                         GACGATGAGGTTGCAAATTCATGGTTAATCAATGAAGCATTCAGGACAGCA
genomic: TACCAACTTGGCCACAACTGATGAATAGTAAATCTGCTCCACCATGCACGgtatgttgca ... ttatctgtagGACGATGAGGTTGCAAATTCATGGTTAAACAATGAAGCAGTCAGGACAGCA
EST: gi|5606148|gb|AI900246.1|AI900246
EST:     TACCAACTTGGCCACAACTGATGAATAGTAAATCTGCTCCACCATGCACG                         GACGATGAGGTTGCAAATTCATGGTTAAACAATGAAGCAGTCAGGACAGCA
genomic: TACCAACTTGGCCACAACTGATGAATAGTAAATCTGCTCCACCATGCACGgtatgttgca ... ttatctgtagGACGATGAGGTTGCAAATTCATGGTTAAACAATGAAGCAGTCAGGACAGCA
EST: gi|57574752|gb|CX547727.1|CX547727
EST:     TACCAACTTGGCCACAACTGATGAATAGTAAATCTGCTCCACCATGCACG                         GACGATGAGGTTGCAAATTCATGGTTAAACAATGAAGCAGTCAGGACAGCA
genomic: TACCAACTTGGCCACAACTGATGAATAGTAAATCTGCTCCACCATGCACGgtatgttgca ... ttatctgtagGACGATGAGGTTGCAAATTCATGGTTAAACAATGAAGCAGTCAGGACAGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtattaccttttcattggatgttcgacaagtaactggatgtaatattatctgtagGACGATGAGGTTGCAAATTCATGGTTAAACAATGAAGCAGTCAGGACAGCAATTCATACTGCACAG
                           aagtaac  putative branch site (score: 2)
                                     atgtaatattatct  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tatattcatgttataactgtcatcatttttattgttgatattattgtattaccttttcattggatgttcgacaagtaactggatgtaatattatctgtagGACGATGAGGTTGCAAATTCATGGTTAAACAATGAAGCAGTCAGGACAGCAATTCATACTGCACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - -tcatgtt
- - - - - - - -actgtca
- - - - - - - - - - - - - - - - tgttgat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggatgt