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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgctttcttcttcttcttcttcttttttcaaatgttttttattcgtattcgtactgattcaataatattttttttatgatttgttctattctggagacaagacggttgttcactttattgttattattattgataattttaatttttacagGTATTTTTTGAGAAAATTGAAGAAGGTTAAGAAAAGCAATGGGCAAGTGCTAGCCATAAATGAG

Basic information

species Glycine max
transcript GLYMA02G45430.1
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|298196038|gb|HO044429.1|HO044429
EST:     CGCATGAGACTCTGGGCAACTAACGAGGTCCGTGCCAAATCCAAGTTCTG                         GTATTTTTTGAGAAAATTGAAGAAGGTTAAGAAAAGCAATGGGCAAGTGCT
genomic: CGCATGAAACTCTGGGCAACTAACGAGGTCCGTGCCAAATCCAAGTTCTGgtatgctttc ... atttttacagGTATTTTTTGAGAAAATTGAAGAAGGTTAAGAAAAGCAATGGGCAAGTGCT
EST: gi|9900133|gb|BE609101.1|BE609101
EST:     CGCATGAAACTCTGGGCAACTAACGAGGTCCGTGCCAAATCCAAGTTCTG                         GTATTTTTTGAAAAAATTGAAGAAAGTTAAGAAAAGCAATGGGCAAGTGCT
genomic: CGCATGAAACTCTGGGCAACTAACGAGGTCCGTGCCAAATCCAAGTTCTGgtatgctttc ... atttttacagGTATTTTTTGAGAAAATTGAAGAAGGTTAAGAAAAGCAATGGGCAAGTGCT
EST: gi|298168671|gb|HO009601.1|HO009601
EST:     CGCATGAAACTCTGGGCAACTAACGAGGTCCGTGCCAAATCCAAGTTCTG                         GTATTTTTTGAGAAAATTGAAGAAGGTTAAGAAAAGCAATGGGCAAGTGCT
genomic: CGCATGAAACTCTGGGCAACTAACGAGGTCCGTGCCAAATCCAAGTTCTGgtatgctttc ... atttttacagGTATTTTTTGAGAAAATTGAAGAAGGTTAAGAAAAGCAATGGGCAAGTGCT
EST: gi|298198941|gb|HO042304.1|HO042304
EST:     CGCATGAAACTCTGGGCAACCAACGAGGTCCGTGCCAAATCCAAGTTCTG                         GTATTTTTTGAGAAAATTGAAGAAGGTTAAGAAAAGCAATGGGCAAGTGCT
genomic: CGCATGAAACTCTGGGCAACTAACGAGGTCCGTGCCAAATCCAAGTTCTGgtatgctttc ... atttttacagGTATTTTTTGAGAAAATTGAAGAAGGTTAAGAAAAGCAATGGGCAAGTGCT
EST: gi|298185354|gb|HO030567.1|HO030567
EST:     CGCATGAAACTCTGGGCAACTAACGAGGTCCGTGCCAAATCCAAGTTCTG                         GTATTTTTTGAGAAAATTGAAGAAGGTTAAGAAAAGCAATGGGCAAGTGCT
genomic: CGCATGAAACTCTGGGCAACTAACGAGGTCCGTGCCAAATCCAAGTTCTGgtatgctttc ... atttttacagGTATTTTTTGAGAAAATTGAAGAAGGTTAAGAAAAGCAATGGGCAAGTGCT
EST: gi|192324020|gb|FK019311.1|FK019311
EST:     CGCATGAAACTCTGGGCAACTAACGAGGTCCGTGCCAAATCCAAGTTCTG                         GTATTTTTTGAGAAAATTGAAGAAGGTTAAGAAAAGCAATGGGCAAGTGCT
genomic: CGCATGAAACTCTGGGCAACTAACGAGGTCCGTGCCAAATCCAAGTTCTGgtatgctttc ... atttttacagGTATTTTTTGAGAAAATTGAAGAAGGTTAAGAAAAGCAATGGGCAAGTGCT
EST: gi|193596934|gb|FK549152.1|FK549152
EST:     CGCATGAAACTCTGGGCAACTAACGAGGTCCGTGCCAAATCCAAGTTCTG                         GTATTTTTTGAGAAAATTGAAGAAGGTTAAGAAAAGCAATGGGCAAGTGCT
genomic: CGCATGAAACTCTGGGCAACTAACGAGGTCCGTGCCAAATCCAAGTTCTGgtatgctttc ... atttttacagGTATTTTTTGAGAAAATTGAAGAAGGTTAAGAAAAGCAATGGGCAAGTGCT
EST: gi|193537152|gb|FK497995.1|FK497995
EST:     GCAATGAAACTCTGGGCAACTAACGAGGTCCGTGCCAAATCCAAGTTCTG                         GTATTTTTTGAGAAAATTGAAGAAGGTTAAGAAAAGCAATGGGCAAGTGCT
genomic: GCA-TGAAACTCTGGGCAACTAACGAGGTCCGTGCCAAATCCAAGTTCTGgtatgctttc ... atttttacagGTATTTTTTGAGAAAATTGAAGAAGGTTAAGAAAAGCAATGGGCAAGTGCT
EST: gi|298176820|gb|HO023293.1|HO023293
EST:     CGCATGAAACTCTGGGCAACTAACGAGGTCCGTGCCAAATCCAAGTTCTG                         GTATTTTTTGAGAAAATTGAAGAAGGTTAAGAAAAGCAATGGGCAAGTGCT
genomic: CGCATGAAACTCTGGGCAACTAACGAGGTCCGTGCCAAATCCAAGTTCTGgtatgctttc ... atttttacagGTATTTTTTGAGAAAATTGAAGAAGGTTAAGAAAAGCAATGGGCAAGTGCT
EST: gi|298188341|gb|HO035034.1|HO035034
EST:     CGCATGAAACTCTGGGCAACTAACGAGGTCCGTGCCAAATCCAAGTTCTG                         GTATTTTTTGAGAAAATTGAAGAAGGTTAAGAAAAGCAATGGGCAAGTGCT
genomic: CGCATGAAACTCTGGGCAACTAACGAGGTCCGTGCCAAATCCAAGTTCTGgtatgctttc ... atttttacagGTATTTTTTGAGAAAATTGAAGAAGGTTAAGAAAAGCAATGGGCAAGTGCT
EST: gi|298184082|gb|HO029295.1|HO029295
EST:     CGCATGAAACTCTGGGCAACTAACGAGGTCCGTGCCAAATCCAAGTCCTG                         GTATTTTTTGAGAAAATTGAAGAAGGTTAAGAAAAGCAATGGGCAAGTGCT
genomic: CGCATGAAACTCTGGGCAACTAACGAGGTCCGTGCCAAATCCAAGTTCTGgtatgctttc ... atttttacagGTATTTTTTGAGAAAATTGAAGAAGGTTAAGAAAAGCAATGGGCAAGTGCT
EST: gi|298192412|gb|HO036494.1|HO036494
EST:     CGCATGAAACTCTGGGCAACTAACGAGGTCCGTGCCAAATCCAAGTTCTG                         GTATTTTTTGAGAAAATTGAAGAAGGTTAAGAAAAGCAATGGGCAAGTGCT
genomic: CGCATGAAACTCTGGGCAACTAACGAGGTCCGTGCCAAATCCAAGTTCTGgtatgctttc ... atttttacagGTATTTTTTGAGAAAATTGAAGAAGGTTAAGAAAAGCAATGGGCAAGTGCT
EST: gi|298182314|gb|HO026489.1|HO026489
EST:     CGCATGAAACTCTGGGCAACTAACGAGGTCCGTGCCAAATCCAAGTTCTG                         GTATTTTTTGAGAAAATTGAAGAAGGTTAAGAAAAGCAATGGGCAAGTGCT
genomic: CGCATGAAACTCTGGGCAACTAACGAGGTCCGTGCCAAATCCAAGTTCTGgtatgctttc ... atttttacagGTATTTTTTGAGAAAATTGAAGAAGGTTAAGAAAAGCAATGGGCAAGTGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaagacggttgttcactttattgttattattattgataattttaatttttacagGTATTTTTTGAGAAAATTGAAGAAGGTTAAGAAAAGCAATGGGCAAGTGCTAGCCATAAATGAG
                                        ttttaat  putative branch site (score: 3)
                                              tttttac  CT-rich tract
            ttcactttattgttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgctttcttcttcttcttcttcttttttcaaatgttttttattcgtattcgtactgattcaataatattttttttatgatttgttctattctggagacaagacggttgttcactttattgttattattattgataattttaatttttacagGTATTTTTTGAGAAAATTGAAGAAGGTTAAGAAAAGCAATGGGCAAGTGCTAGCCATAAATGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA