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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattattgttgttgttgttgttgtagttgttgttgttgtgttggatctctgattagagaatgcttgtgtcgtttagATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCCGACAAGGAGGATTACAACG

Basic information

species Glycine max
transcript GLYMA04G38000.1
intron # 1
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|42722745|gb|CK768644.1|CK768644
EST:     CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCG                         ATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTC
genomic: CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCGgtaattattg ... tgtcgtttagATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTC
EST: gi|208053503|gb|GD852632.1|GD852632
EST:     CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCG                         ATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
genomic: CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCGgtaattattg ... tgtcgtttagATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
EST: gi|193328928|gb|FK295172.1|FK295172
EST:     CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCG                         ATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
genomic: CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCGgtaattattg ... tgtcgtttagATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
EST: gi|7587892|gb|AW703699.1|AW703699
EST:     CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCG                         ATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
genomic: CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCGgtaattattg ... tgtcgtttagATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
EST: gi|193427160|gb|FK397106.1|FK397106
EST:     CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCG                         ATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
genomic: CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCGgtaattattg ... tgtcgtttagATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
EST: gi|213605881|gb|DB968633.1|DB968633
EST:     CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCG                         ATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
genomic: CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCGgtaattattg ... tgtcgtttagATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
EST: gi|209711691|gb|BW674054.1|BW674054
EST:     CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCG                         ATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
genomic: CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCGgtaattattg ... tgtcgtttagATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
EST: gi|46492900|gb|CN472456.1|CN472456
EST:     GCTTCCGATGACGCCGACGACGCG                         ATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
genomic: GCTTCCGATGACGCCGACGACGCGgtaattattg ... tgtcgtttagATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
EST: gi|151394231|gb|EV264102.1|EV264102
EST:     CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCG                         ATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
genomic: CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCGgtaattattg ... tgtcgtttagATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
EST: gi|13180875|gb|BG352215.1|BG352215
EST:     CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCG                         ATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
genomic: CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCGgtaattattg ... tgtcgtttagATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
EST: gi|213620113|gb|DB965405.1|DB965405
EST:     CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCG                         ATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
genomic: CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCGgtaattattg ... tgtcgtttagATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
EST: gi|6914152|gb|AW395682.1|AW395682
EST:     CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCG                         ATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
genomic: CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCGgtaattattg ... tgtcgtttagATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
EST: gi|209707252|gb|BW670852.1|BW670852
EST:     CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCG                         ATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
genomic: CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCGgtaattattg ... tgtcgtttagATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
EST: gi|193373739|gb|FK343353.1|FK343353
EST:     CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCG                         ATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
genomic: CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCGgtaattattg ... tgtcgtttagATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
EST: gi|209714610|gb|BW662246.1|BW662246
EST:     CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCG                         ATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
genomic: CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCGgtaattattg ... tgtcgtttagATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
EST: gi|7587891|gb|AW703698.1|AW703698
EST:     CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCG                         ATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
genomic: CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCGgtaattattg ... tgtcgtttagATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
EST: gi|11689094|gb|BF596770.1|BF596770
EST:     CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCG                         ATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
genomic: CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCGgtaattattg ... tgtcgtttagATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
EST: gi|26058725|gb|CA801639.1|CA801639
EST:     CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCG                         ATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
genomic: CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCGgtaattattg ... tgtcgtttagATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
EST: gi|151397060|gb|EV266933.1|EV266933
EST:     CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCG                         ATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
genomic: CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCGgtaattattg ... tgtcgtttagATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
EST: gi|9987269|gb|BE661377.1|BE661377
EST:     CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCG                         ATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC
genomic: CTTCCTCTTCCTCTCACCTCGTTCGTGCTTCCGATGACGCCGACGACGCGgtaattattg ... tgtcgtttagATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtagttgttgttgttgtgttggatctctgattagagaatgcttgtgtcgtttagATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCCGACAAGGAGGATTACAACG
                         ctctgat  putative branch site (score: 4)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaattattgttgttgttgttgttgtagttgttgttgttgtgttggatctctgattagagaatgcttgtgtcgtttagATCTTCTACGAGTCATTCGACGAGGATTTTGACGGACGGTGGATTGTGTCCGACAAGGAGGATTACAACG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT