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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...accatagtaacagatttgaaagagcctctagaatttggattatgatcttaattttttcagttagtggattcaaatatttaaatgttaataaccttctcagGAATGCCATACGGGAAATGGTGGTCCGGGGAGCACCTGCTATTGCAATTGCAGCGGCACTCTCTTTGGCTGTGGAGGTGTTCAATTTAGATTTTAATGGG

Basic information

species Glycine max
transcript GLYMA09G08190.1
intron # 2
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|151411952|gb|EV281763.1|EV281763
EST:     CTCCCTCTGGAGACAGTTTACTTGGAAATTCGGGATTCAACGGATGGCTG                         GAATGCCATACGGGAAATGGTGGTCCGGGGAGCACCTGCTATTGCAATTGC
genomic: CTCCCTCTGGAGACAGTTTACTTGGAAATTCGGGATTCAACGGATGGCTGgtaagatatt ... accttctcagGAATGCCATACGGGAAATGGTGGTCCGGGGAGCACCTGCTATTGCAATTGC
EST: gi|151406212|gb|EV276027.1|EV276027
EST:     CTCCCTCTGGAGACAGTTTACTTGGAAATTCGGGATTCAACGGATGGCTG                         GAATGCCATACGGGAAATGGTGGTCCGGGGAGCACCTGCTATTGCAATTGC
genomic: CTCCCTCTGGAGACAGTTTACTTGGAAATTCGGGATTCAACGGATGGCTGgtaagatatt ... accttctcagGAATGCCATACGGGAAATGGTGGTCCGGGGAGCACCTGCTATTGCAATTGC
EST: gi|192316660|gb|FK008253.1|FK008253
EST:     CTCCCTCTGGAGACAGTTTACTTGGAAATTCGGGATTCAACGGATGGCTG                         GAATGCCATACGGGAAATGGTGGTCCGGGGAGCATCTGCTATTGCAATTGC
genomic: CTCCCTCTGGAGACAGTTTACTTGGAAATTCGGGATTCAACGGATGGCTGgtaagatatt ... accttctcagGAATGCCATACGGGAAATGGTGGTCCGGGGAGCACCTGCTATTGCAATTGC
EST: gi|298183108|gb|HO028371.1|HO028371
EST:     CTCCCTCTGGAGACAGTTTACTTGGAAATTCGGGATTCAACGGATGGCTG                         GAATGCCATACGGGAAATGGTGGTCCGGGGAGCACCTGCTATTGCAATTGC
genomic: CTCCCTCTGGAGACAGTTTACTTGGAAATTCGGGATTCAACGGATGGCTGgtaagatatt ... accttctcagGAATGCCATACGGGAAATGGTGGTCCGGGGAGCACCTGCTATTGCAATTGC
EST: gi|151409355|gb|EV279163.1|EV279163
EST:     CTCCCTCTGGAGACAGTTTACTTGGAAATTCGGGATTCAACGGATGGCTG                         GAATGCCATACGGGAAATGGTGGTCCGGGGAGCACCTGCTATTGCAATTGC
genomic: CTCCCTCTGGAGACAGTTTACTTGGAAATTCGGGATTCAACGGATGGCTGgtaagatatt ... accttctcagGAATGCCATACGGGAAATGGTGGTCCGGGGAGCACCTGCTATTGCAATTGC
EST: gi|192325814|gb|FK018036.1|FK018036
EST:     CTCCCTCTGGAGACAGTTTACTTGGAAATTCGGGATTCAACGGATGGCTG                         GAATGCCATACGGGAAATGGTGGTCCGGGGAGCACCTGCTATTGCAATTGC
genomic: CTCCCTCTGGAGACAGTTTACTTGGAAATTCGGGATTCAACGGATGGCTGgtaagatatt ... accttctcagGAATGCCATACGGGAAATGGTGGTCCGGGGAGCACCTGCTATTGCAATTGC
EST: gi|192316659|gb|FK008252.1|FK008252
EST:     CTCCCTCTGGAGACAGTTTACTTGGAAATTCGGGATTCAACGGATGGCTG                         GAATGCCATACGGGAAATGGTGGTCCGGGGAGCATCTGCTATTGCAATTGC
genomic: CTCCCTCTGGAGACAGTTTACTTGGAAATTCGGGATTCAACGGATGGCTGgtaagatatt ... accttctcagGAATGCCATACGGGAAATGGTGGTCCGGGGAGCACCTGCTATTGCAATTGC
EST: gi|192308219|gb|FK000855.1|FK000855
EST:     CTCCCTCTGGAGACAGTTTACTTGGAAATTCGGGATTCAACGGATGGCTG                         GAATGCCATACGGGAAATGGTGGTCCGGGGAGCACCTGCTATTGCAATTGC
genomic: CTCCCTCTGGAGACAGTTTACTTGGAAATTCGGGATTCAACGGATGGCTGgtaagatatt ... accttctcagGAATGCCATACGGGAAATGGTGGTCCGGGGAGCACCTGCTATTGCAATTGC
EST: gi|192321693|gb|FK014037.1|FK014037
EST:     CTCCCTCTGGAGACAGTTTACTTGGAAATTCGGGATTCAACGGATGGCTG                         GAATGCCATACGGGAAATGGTGGTCCGGGGAGCACCTGCTATTGCAATTGC
genomic: CTCCCTCTGGAGACAGTTTACTTGGAAATTCGGGATTCAACGGATGGCTGgtaagatatt ... accttctcagGAATGCCATACGGGAAATGGTGGTCCGGGGAGCACCTGCTATTGCAATTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttaattttttcagttagtggattcaaatatttaaatgttaataaccttctcagGAATGCCATACGGGAAATGGTGGTCCGGGGAGCACCTGCTATTGCAATTGCAGCGGCACTCTCTTTGGCTGTGGAGGTGTTCAATTTAGATTTTAATGGG
                                        taataac  putative branch site (score: 1)
                                              ccttctc  CT-rich tract
                      attcaaatatttaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
accatagtaacagatttgaaagagcctctagaatttggattatgatcttaattttttcagttagtggattcaaatatttaaatgttaataaccttctcagGAATGCCATACGGGAAATGGTGGTCCGGGGAGCACCTGCTATTGCAATTGCAGCGGCACTCTCTTTGGCTGTGGAGGTGTTCAATTTAGATTTTAATGGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - agcctct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gttagtg