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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttaagatcggattgcttcattttctatctcgctttttcttgtgtgttgtgcttacttaatacttgtagctttgtctagttaataagtgaaatgtgttgccaacctgttgctttggttgaaactagaaagtgtttactttgggactttggtttatccgctgacttgcttgcctttattgatttgtgtgggtgctagATTGGACACAACTGTGATTGATATTGGGCCTCCTGCTGATTGGGTAAAAGTGAATGTACAAAAAACT

Basic information

species Glycine max
transcript GLYMA11G09370.1
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|22523112|gb|BU081923.1|BU081923
EST:     TACATGGATAATGCAGTCAAAGCTGCACGCAGTAAACCATCTAAACCACA                         ATTGGACACAACTGTGATTGATATTGGGCCTCCTGCTGATTGGGTAAAAGT
genomic: TACATGGATAATGCAGTCAAAGCTGCACGCAGTAAACCATCTAAACCACAgttaagatcg ... tgggtgctagATTGGACACAACTGTGATTGATATTGGGCCTCCTGCTGATTGGGTAAAAGT
EST: gi|14259145|gb|BG882053.1|BG882053
EST:     TACATGGATAATGCAGTCAAAGCTGCACGCAGTAAACCATCTAAACCACA                         ATTGGACACAACTGTGATTGATATTGGGCCTCCTGCTGATTGGGTAAAAGT
genomic: TACATGGATAATGCAGTCAAAGCTGCACGCAGTAAACCATCTAAACCACAgttaagatcg ... tgggtgctagATTGGACACAACTGTGATTGATATTGGGCCTCCTGCTGATTGGGTAAAAGT
EST: gi|7042403|gb|AW472297.1|AW472297
EST:     TACATGGATGATGCAGTCAAAGCTGCACGCAGTAAACCATCTAAACCACA                         ATTGGACACAACT
genomic: TACATGGATAATGCAGTCAAAGCTGCACGCAGTAAACCATCTAAACCACAgttaagatcg ... tgggtgctagATTGGACACAACT
EST: gi|209718163|gb|BW657809.1|BW657809
EST:     TACATGGATAATGCAGTCAAAGCTGCACGCAGTAAACCATCTAAACCACA                         ATTGGACACAACTGTGATTGATATTGGGCCTCCTGCTGATTGGGTAAAAGT
genomic: TACATGGATAATGCAGTCAAAGCTGCACGCAGTAAACCATCTAAACCACAgttaagatcg ... tgggtgctagATTGGACACAACTGTGATTGATATTGGGCCTCCTGCTGATTGGGTAAAAGT
EST: gi|192294436|gb|FG987365.1|FG987365
EST:     TACATGGATAATGCAGTCAAAGCTGCACGCAGTAAACCATCTAAACCACA                         ATTGGACACAACTGTGATTGATATTGGGCCTCCTGCTGATTGGGTAAAAGT
genomic: TACATGGATAATGCAGTCAAAGCTGCACGCAGTAAACCATCTAAACCACAgttaagatcg ... tgggtgctagATTGGACACAACTGTGATTGATATTGGGCCTCCTGCTGATTGGGTAAAAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggactttggtttatccgctgacttgcttgcctttattgatttgtgtgggtgctagATTGGACACAACTGTGATTGATATTGGGCCTCCTGCTGATTGGGTAAAAGTGAATGTACAAAAAACT
                                 tattgat  putative branch site (score: 3)
                               tttattgattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttaagatcggattgcttcattttctatctcgctttttcttgtgtgttgtgcttacttaatacttgtagctttgtctagttaataagtgaaatgtgttgccaacctgttgctttggttgaaactagaaagtgtttactttgggactttggtttatccgctgacttgcttgcctttattgatttgtgtgggtgctagATTGGACACAACTGTGATTGATATTGGGCCTCCTGCTGATTGGGTAAAAGTGAATGTACAAAAAACT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT