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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggatgcattcagtgaatgcttctttttggtaatatatataattatattggatttgtttgatattatttctctatttaatggaaaacattttttgtggcagGTTTTATGTGCTGGTAAAGACCTTGCTACAGAACAAACAGCTGGTCGTATGGTTAATTTACTCAGACAGCTCCAGCAAACTTTACCACCCTCTACACTCG

Basic information

species Glycine max
transcript GLYMA05G28950.1
intron # 21
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|58015090|gb|CX701832.1|CX701832
EST:     TGGGCCCAAACAATCAGTACCTTCCAAAAATAGTTTCAGTGTTTGCTGAG                         GTTTTATGTGCTGGTAAAGACCTTGCTACAGAACAAACAGCTGGTCGTATG
genomic: TGGGCCCAAACAATCAGTACCTTCCAAAAATAGTTTCAGTGTTTGCTGAGgttagttttt ... tttgtggcagGTTTTATGTGCTGGTAAAGACCTTGCTACAGAACAAACAGCTGGTCGTATG
EST: gi|6913740|gb|AW395270.1|AW395270
EST:     TGGGCCCAAACAATCAGTACCTTCCAAAAATAGTTTCAGTGTTTGCTGAG                         GTTTTATGTGCTGGTAAAGACCTTGCTACAGAACAAACAGCTGGTCGTATG
genomic: TGGGCCCAAACAATCAGTACCTTCCAAAAATAGTTTCAGTGTTTGCTGAGgttagttttt ... tttgtggcagGTTTTATGTGCTGGTAAAGACCTTGCTACAGAACAAACAGCTGGTCGTATG
EST: gi|23733694|gb|BU765054.1|BU765054
EST:     TGGGCCCAAACAATCAGTACCTTCCAAAAATATTTTCAGTGTTTGCTGAG                         GTTTTATGTGCTGGTAAAGACCTTGCTACAGAACAAACAGCTGGTCGTATG
genomic: TGGGCCCAAACAATCAGTACCTTCCAAAAATAGTTTCAGTGTTTGCTGAGgttagttttt ... tttgtggcagGTTTTATGTGCTGGTAAAGACCTTGCTACAGAACAAACAGCTGGTCGTATG
EST: gi|213597745|gb|DB964482.1|DB964482
EST:     TGGGCCCAAACAATCAGTACCTTCCAAAAATAGTTTCAGTGTTTGCTGAG                         GTTTTATGTGCTGGTAAAGACCTTGCTACAGAACAAACAGCTGGTCGTATG
genomic: TGGGCCCAAACAATCAGTACCTTCCAAAAATAGTTTCAGTGTTTGCTGAGgttagttttt ... tttgtggcagGTTTTATGTGCTGGTAAAGACCTTGCTACAGAACAAACAGCTGGTCGTATG
EST: gi|51343620|gb|CO984353.1|CO984353
EST:     TGGGCCCAAACAATCAGTACCTTCCAAAAATAGTTTCAGTGTTTGCTGAG                         GTTTTATGTGCTGGTAAAGACCTTGCTACAGAACAAACAGCTGGTCGTATG
genomic: TGGGCCCAAACAATCAGTACCTTCCAAAAATAGTTTCAGTGTTTGCTGAGgttagttttt ... tttgtggcagGTTTTATGTGCTGGTAAAGACCTTGCTACAGAACAAACAGCTGGTCGTATG
EST: gi|298166149|gb|HO009120.1|HO009120
EST:     TGGGCCCAAACAATCAGTACCTTCCAAAAATAGTTTCAGTGTTTGCTGAG                         GTTTTATGTGCTGGTAAAGACCTTGCTACAGAACAAACAGCTGGTCGTATG
genomic: TGGGCCCAAACAATCAGTACCTTCCAAAAATAGTTTCAGTGTTTGCTGAGgttagttttt ... tttgtggcagGTTTTATGTGCTGGTAAAGACCTTGCTACAGAACAAACAGCTGGTCGTATG
EST: gi|58016994|gb|CX703736.1|CX703736
EST:     TGGGCCCAAACAATCAGTACCTTCCAAAAATAGTTTCAGTGTTTGCTGAG                         GTTTTATGTGCTGGTAAAGACCTTGCTACAGAACAAACAGCTGGTCGTATG
genomic: TGGGCCCAAACAATCAGTACCTTCCAAAAATAGTTTCAGTGTTTGCTGAGgttagttttt ... tttgtggcagGTTTTATGTGCTGGTAAAGACCTTGCTACAGAACAAACAGCTGGTCGTATG
EST: gi|9258815|gb|BE346962.1|BE346962
EST:     TGGGCCCAAACAATCAGTACCTTCCAAAAATAGTTTCAGTGTTTGCTGAG                         GTTTTATGTGCTGGTAAAGACCTTGCTACAGAACAAACAGCTGGTCGTATG
genomic: TGGGCCCAAACAATCAGTACCTTCCAAAAATAGTTTCAGTGTTTGCTGAGgttagttttt ... tttgtggcagGTTTTATGTGCTGGTAAAGACCTTGCTACAGAACAAACAGCTGGTCGTATG
EST: gi|14008648|gb|BG725252.1|BG725252
EST:     TGGGCCCAAACAATCAGTACCTTCCAAAAATAGTTTCAGTGTTTGCTGAG                         GTTTTATGTGCTGGTAAAGACCTTGCTACAGAACAAACAGCTGGTCGTATG
genomic: TGGGCCCAAACAATCAGTACCTTCCAAAAATAGTTTCAGTGTTTGCTGAGgttagttttt ... tttgtggcagGTTTTATGTGCTGGTAAAGACCTTGCTACAGAACAAACAGCTGGTCGTATG
EST: gi|51336605|gb|CO980471.1|CO980471
EST:     TGGGCCCAAACAATCAGTACCTTCCAAAAATAGTTTCAGTGTTTGCTGAG                         GTTTTATGTGCTGGTAAAGACCTTGCTACAGAACAAACAGCTGGTCGTATG
genomic: TGGGCCCAAACAATCAGTACCTTCCAAAAATAGTTTCAGTGTTTGCTGAGgttagttttt ... tttgtggcagGTTTTATGTGCTGGTAAAGACCTTGCTACAGAACAAACAGCTGGTCGTATG
EST: gi|254327539|gb|GR837148.1|GR837148
EST:     TGGGCCCAAACAATCAGTACCTTCCAAAAATAGTTTCAGTGTTTGCTGAG                         GTTTTATGTGCTGGTAAAGACCTTGCTACAGAACAAACAGCTGGTCGTATG
genomic: TGGGCCCAAACAATCAGTACCTTCCAAAAATAGTTTCAGTGTTTGCTGAGgttagttttt ... tttgtggcagGTTTTATGTGCTGGTAAAGACCTTGCTACAGAACAAACAGCTGGTCGTATG
EST: gi|57575075|gb|CX548050.1|CX548050
EST:     TGGGCCCAAACAATCAGTACCTTCCAAAAATAGTTTCAGTGTTTGCTGAG                         GTTTTATGTGCTGGTAAAGACCTTGCTACAGAACAAACAGCTGGTCGTATG
genomic: TGGGCCCAAACAATCAGTACCTTCCAAAAATAGTTTCAGTGTTTGCTGAGgttagttttt ... tttgtggcagGTTTTATGTGCTGGTAAAGACCTTGCTACAGAACAAACAGCTGGTCGTATG
EST: gi|51338442|gb|CO982308.1|CO982308
EST:     TGGGCCCAAACAATCAGTACCTTCCAAAAATAGTTTCAGTGTTTGCTGAG                         GTTTTATGTGCTGGTAAAGACCTTGCTACAGAACAAACAGCTGGTCGTATG
genomic: TGGGCCCAAACAATCAGTACCTTCCAAAAATAGTTTCAGTGTTTGCTGAGgttagttttt ... tttgtggcagGTTTTATGTGCTGGTAAAGACCTTGCTACAGAACAAACAGCTGGTCGTATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attggatttgtttgatattatttctctatttaatggaaaacattttttgtggcagGTTTTATGTGCTGGTAAAGACCTTGCTACAGAACAAACAGCTGGTCGTATGGTTAATTTACTCAGACAGCTCCAGCAAACTTTACCACCCTCTACACTCG
                           atttaat  putative branch site (score: 4)
                                        catttttt  putative PPT
              atattatttctctatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggatgcattcagtgaatgcttctttttggtaatatatataattatattggatttgtttgatattatttctctatttaatggaaaacattttttgtggcagGTTTTATGTGCTGGTAAAGACCTTGCTACAGAACAAACAGCTGGTCGTATGGTTAATTTACTCAGACAGCTCCAGCAAACTTTACCACCCTCTACACTCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - gcattca
- - - - - - -gaatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - ttgtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggaaaac