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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaagctgtcgtagattttggacttgtcacttatggtaaagatatttataggtatacatgtgcttaaaaggagtttgacttgggattgatgaatgttgtagGGGTTGAAATTGCATTTGGACTACGCAGGACCACGTGATAATGTGAAAGGTTCTCGTTCAGGAAGTTATGCTTATTCAGATGCATGGGCTTCAGCATATA

Basic information

species Glycine max
transcript GLYMA04G37370.1
intron # 14
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|22933109|gb|BU550248.1|BU550248
EST:     ACAGTGATCTTGCAGCAGCTGTGGATCATGCAAGGACAGCTGGTTTGAAG                         GGGTTGAAATTGCATTTGGACTACGCAGGACCACGTTATAATGTGAAAGGT
genomic: ACAGTGATCTTGCAGCAGCTGTGGATCATGCAAGGACAGCTGGTTTGAAGgtatggtaga ... aatgttgtagGGGTTGAAATTGCATTTGGACTACGCAGGACCACGTGATAATGTGAAAGGT
EST: gi|192327947|gb|FK022478.1|FK022478
EST:     ACAGTGATCTTGCAGCAGCTGTGGATCATGCAAGGACAGCTGGTTTGAAG                         GGGTTGAAATTGCATTTGGACTACGCAGGACCACGTGATAATGTGAAAGGT
genomic: ACAGTGATCTTGCAGCAGCTGTGGATCATGCAAGGACAGCTGGTTTGAAGgtatggtaga ... aatgttgtagGGGTTGAAATTGCATTTGGACTACGCAGGACCACGTGATAATGTGAAAGGT
EST: gi|26269205|gb|CA820268.1|CA820268
EST:     ACAGTGATCTTGCAGCAGCTGTGGATCATGCAAGGACAGCTGGTTTGAAG                         GGGTTGAAATTGCATTTGGACTACGCAGGACCACGTGATAATGTGAAAGGT
genomic: ACAGTGATCTTGCAGCAGCTGTGGATCATGCAAGGACAGCTGGTTTGAAGgtatggtaga ... aatgttgtagGGGTTGAAATTGCATTTGGACTACGCAGGACCACGTGATAATGTGAAAGGT
EST: gi|21995020|gb|BQ786548.1|BQ786548
EST:     ACAGTGATCTTGCAGCAGCTGTGGATCATGCAAGGACAGCTGGTTTGAAG                         GGGTTGAAATTGCATTTGGACTACGCAGGACCACGTGATAATGTGAAAGGT
genomic: ACAGTGATCTTGCAGCAGCTGTGGATCATGCAAGGACAGCTGGTTTGAAGgtatggtaga ... aatgttgtagGGGTTGAAATTGCATTTGGACTACGCAGGACCACGTGATAATGTGAAAGGT
EST: gi|20812907|gb|BQ297385.1|BQ297385
EST:     ACAGTGATCTTGCAGCAGCTGTGGATCATGCAAGGACAGCTGGTTTGAAG                         GGGTTGAAATTGCATTTGGACTACGCAGGACCACGTGATAATGTGAAAGGT
genomic: ACAGTGATCTTGCAGCAGCTGTGGATCATGCAAGGACAGCTGGTTTGAAGgtatggtaga ... aatgttgtagGGGTTGAAATTGCATTTGGACTACGCAGGACCACGTGATAATGTGAAAGGT
EST: gi|21678465|gb|BQ630816.1|BQ630816
EST:     ACAGTGATCTTGCAGCAGCTGTGGATCATGCAAGGACAGCTGGTTTGAAG                         GGGTTGAAATTGCATTTGGACTACGCAGGACCACGTGATAATGTGAAAGGT
genomic: ACAGTGATCTTGCAGCAGCTGTGGATCATGCAAGGACAGCTGGTTTGAAGgtatggtaga ... aatgttgtagGGGTTGAAATTGCATTTGGACTACGCAGGACCACGTGATAATGTGAAAGGT
EST: gi|51341763|gb|CO983080.1|CO983080
EST:     ACAGTGATCTTGCAGCAGCTGTGGATCATGCAAGGACAGCTGGTTTGAAG                         GGGTTGAAATTGCATTTGGACTACGCAGGACCACGTGATAATGTGAAAGGT
genomic: ACAGTGATCTTGCAGCAGCTGTGGATCATGCAAGGACAGCTGGTTTGAAGgtatggtaga ... aatgttgtagGGGTTGAAATTGCATTTGGACTACGCAGGACCACGTGATAATGTGAAAGGT
EST: gi|33390686|gb|CA853881.1|CA853881
EST:     ACAGTGATCTTGCAGCAGCTGTGGATCATGCAAGGACAGCTGGTTTGAAG                         GGGTTGAAATTGCATTTGGACTACGCAGGACCACGTGATAATGTGAAAGGT
genomic: ACAGTGATCTTGCAGCAGCTGTGGATCATGCAAGGACAGCTGGTTTGAAGgtatggtaga ... aatgttgtagGGGTTGAAATTGCATTTGGACTACGCAGGACCACGTGATAATGTGAAAGGT
EST: gi|5678159|gb|AI939289.1|AI939289
EST:     ACAGTGATCTTGCAGCAGCTGTGGATCATGCAAGGACAGCTGGTTTGAAG                         GGGTTGAAATTGCATTTGGACTACGCAGGACCACGTGATAATGTGAAAGGT
genomic: ACAGTGATCTTGCAGCAGCTGTGGATCATGCAAGGACAGCTGGTTTGAAGgtatggtaga ... aatgttgtagGGGTTGAAATTGCATTTGGACTACGCAGGACCACGTGATAATGTGAAAGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tataggtatacatgtgcttaaaaggagtttgacttgggattgatgaatgttgtagGGGTTGAAATTGCATTTGGACTACGCAGGACCACGTGATAATGTGAAAGGTTCTCGTTCAGGAAGTTATGCTTATTCAGATGCATGGGCTTCAGCATATA
                                     gattgat  putative branch site (score: 4)
                 ttaaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gaagctgtcgtagattttggacttgtcacttatggtaaagatatttataggtatacatgtgcttaaaaggagtttgacttgggattgatgaatgttgtagGGGTTGAAATTGCATTTGGACTACGCAGGACCACGTGATAATGTGAAAGGTTCTCGTTCAGGAAGTTATGCTTATTCAGATGCATGGGCTTCAGCATATA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG