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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gagttgattgtttcttttcttgcatgcactcccaaaaactcatttaacatctaacctttgaatttgtgtttacttactcacttgtatctttttttgacagACTAAAAAGTTCGTCAAAAGTTTAGAGTCGTCCTGAGGCGAGTTCCCGTTGAGAATTTTCTAAGGGGACTGGTTGCAACTGCAAATGTAGTGGAAATTGT

Basic information

species Glycine max
transcript GLYMA03G14780.1
intron # 8
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|193571595|gb|FK532826.1|FK532826
EST:     CGGCTGGGATCTTGGAATGTGATCATGTTTCTAACCTTAGAACAG                         ACTAAAAAGTTCGTCAAAAGTTTAGAGTCGTCCTGAGGCGAGTTCCCGTTG
genomic: CGGCTGGGATCTTGGAATGTGATCATGTTTCTAACCTTAGAACAGgtatattttg ... tttttgacagACTAAAAAGTTCGTCAAAAGTTTAGAGTCGTCCTGAGGCGAGTTCCCGTTG
EST: gi|254342278|gb|GR853415.1|GR853415
EST:     TTGGACGGCTGGGATCTTGGAATGTGATCATGTTTCTAACCTTAGAACAG                         ACTAAAAAGTTCGTCAAAAGTTTAGAGTCGTCCTGAGGCGAGTTCCCGTTG
genomic: TTGGACGGCTGGGATCTTGGAATGTGATCATGTTTCTAACCTTAGAACAGgtatattttg ... tttttgacagACTAAAAAGTTCGTCAAAAGTTTAGAGTCGTCCTGAGGCGAGTTCCCGTTG
EST: gi|10848284|gb|BF071710.1|BF071710
EST:     TTGGACGGCTGGGATCTTGGAATGTGATCATGTTTCTAACCTTAGAACAG                         ACTAAAAAGTTCGTCAAAAGTTTAGAGTCGTCCTGA
genomic: TTGGACGGCTGGGATCTTGGAATGTGATCATGTTTCTAACCTTAGAACAGgtatattttg ... tttttgacagACTAAAAAGTTCGTCAAAAGTTTAGAGTCGTCCTGA
EST: gi|208148904|gb|GD945004.1|GD945004
EST:     ATCTTGGAATGTGATCATGTTTCTAACCTTAGAACAG                         ACTAAAAAGTTCGTCAAAAGTTTAGAGTCGTCCTGAGGCGAGTTCCCGTTG
genomic: ATCTTGGAATGTGATCATGTTTCTAACCTTAGAACAGgtatattttg ... tttttgacagACTAAAAAGTTCGTCAAAAGTTTAGAGTCGTCCTGAGGCGAGTTCCCGTTG
EST: gi|19053009|gb|BM731676.1|BM731676
EST:     TTGGACGGCTGGGATCTTGGAATGTGATCATGTTTCTAACCTTAGAACAG                         ACTAAAAAGTTCGTCAAAAGTTTAGAGTCGTCCTGAGGCGAGTTCCCGTTG
genomic: TTGGACGGCTGGGATCTTGGAATGTGATCATGTTTCTAACCTTAGAACAGgtatattttg ... tttttgacagACTAAAAAGTTCGTCAAAAGTTTAGAGTCGTCCTGAGGCGAGTTCCCGTTG
EST: gi|22930316|gb|BU547463.1|BU547463
EST:     TTGGACGGCTGGGATCTTGGAATGTGATCATGTTTCTAACCTTAGAACAG                         ACTAAAAAGTTCGTCAAAAGTTTAGAGTCGTCCTGAGGCGAGTTCCCGTTG
genomic: TTGGACGGCTGGGATCTTGGAATGTGATCATGTTTCTAACCTTAGAACAGgtatattttg ... tttttgacagACTAAAAAGTTCGTCAAAAGTTTAGAGTCGTCCTGAGGCGAGTTCCCGTTG
EST: gi|209724657|gb|BW677737.1|BW677737
EST:     TTGGACGGCTGGGATCTTGGAATGTGATCATGTTTCTAACCTTAGAACAG                         ACTAAAAAGTTCGTCAAAAGTTTAGAGTCGTCCTGAGGCGAGTTCCCGTTG
genomic: TTGGACGGCTGGGATCTTGGAATGTGATCATGTTTCTAACCTTAGAACAGgtatattttg ... tttttgacagACTAAAAAGTTCGTCAAAAGTTTAGAGTCGTCCTGAGGCGAGTTCCCGTTG
EST: gi|10255376|gb|BE823142.1|BE823142
EST:     TTGGACGGCTGGGATCTTGGAATGTGATCATGTTTCTAACCTTAGAACAG                         ACTAAAAAGTTCGTCAAAAGTTTAGAGTCGTCCTGAGGCGAGTTCCCGTTG
genomic: TTGGACGGCTGGGATCTTGGAATGTGATCATGTTTCTAACCTTAGAACAGgtatattttg ... tttttgacagACTAAAAAGTTCGTCAAAAGTTTAGAGTCGTCCTGAGGCGAGTTCCCGTTG
EST: gi|7588265|gb|AW704064.1|AW704064
EST:     TTGGACGGCTGGGATCTTGGAATGTGATCATGTTTCTAACCTTAGAACAG                         ACTAAAAAGTTCGTCAAAAGTTTAGAGTCGTCCTGAGGCGAGTTCCCGTTG
genomic: TTGGACGGCTGGGATCTTGGAATGTGATCATGTTTCTAACCTTAGAACAGgtatattttg ... tttttgacagACTAAAAAGTTCGTCAAAAGTTTAGAGTCGTCCTGAGGCGAGTTCCCGTTG
EST: gi|15286162|gb|BI470053.1|BI470053
EST:     TTGGACGGCTGGGATCTTGGAATGTGATCATGTTTCTAACCTTAGAACAG                         ACTAAAAAGTTCGTCAAAAGTTTAGAGTCGTCCTGAGGCGAGTTCCCGTTG
genomic: TTGGACGGCTGGGATCTTGGAATGTGATCATGTTTCTAACCTTAGAACAGgtatattttg ... tttttgacagACTAAAAAGTTCGTCAAAAGTTTAGAGTCGTCCTGAGGCGAGTTCCCGTTG
EST: gi|213607924|gb|DB983879.1|DB983879
EST:     TTGGACGGCTGGGATCTTGGAATGTGATCATGTTTCTAACCTTAGAACAG                         ACTAAAAAGTTCGTCAAAAGTTTAGAGTCGTCCTGAGGCGAGTTCCCGTTG
genomic: TTGGACGGCTGGGATCTTGGAATGTGATCATGTTTCTAACCTTAGAACAGgtatattttg ... tttttgacagACTAAAAAGTTCGTCAAAAGTTTAGAGTCGTCCTGAGGCGAGTTCCCGTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacatctaacctttgaatttgtgtttacttactcacttgtatctttttttgacagACTAAAAAGTTCGTCAAAAGTTTAGAGTCGTCCTGAGGCGAGTTCCCGTTGAGAATTTTCTAAGGGGACTGGTTGCAACTGCAAATGTAGTGGAAATTGT
                             tactcac  putative branch site (score: 1)
                                   cttgtatcttttttt  CT-rich tract
                                    ttgtatcttttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gagttgattgtttcttttcttgcatgcactcccaaaaactcatttaacatctaacctttgaatttgtgtttacttactcacttgtatctttttttgacagACTAAAAAGTTCGTCAAAAGTTTAGAGTCGTCCTGAGGCGAGTTCCCGTTGAGAATTTTCTAAGGGGACTGGTTGCAACTGCAAATGTAGTGGAAATTGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - cttgcat
- - - - - - - - - - - - - cactccc
- - - - - - - - - - - - - - - - - - - - - - - - - - -acctttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cacttgt