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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtttggaagaagacaaatgaacagtataggatgaacataggagatcctcatttgcaaattttataattttcatgtaaccggctgttacctcctataacagGTCATCAGTGGTGCCTCACCTGTGCATCAGACTTTAACTACTTCACCATAGCCAGCACTGTGAATTGTGAGGGGTCTTTTTCCAAAACCAGAAAGAAACC

Basic information

species Glycine max
transcript GLYMA16G05140.1
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|151409476|gb|EV279284.1|EV279284
EST:     AAGCACAAAGAGTTTCTCCCACCATTGCCTGAACCGATTCTCTGAA                         GTCATCAGTGGTGCCTCACCTGTGCATCAGACTTTAACTACTTCACCATAG
genomic: AAGCACAAAGAGTTTCTCCCACCATTGCCTGAACCGATTCTCTGAAgtaggttttt ... cctataacagGTCATCAGTGGTGCCTCACCTGTGCATCAGACTTTAACTACTTCACCATAG
EST: gi|17400397|gb|BM177179.1|BM177179
EST:     CACCATTGCCTGAACCGATTCTCTGAA                         GTCATCAGTGGTGCCTCACCTGTGCATCAGACTTTAACTACTTCACCATAG
genomic: CACCATTGCCTGAACCGATTCTCTGAAgtaggttttt ... cctataacagGTCATCAGTGGTGCCTCACCTGTGCATCAGACTTTAACTACTTCACCATAG
EST: gi|209715003|gb|BW650854.1|BW650854
EST:     TCTCAAGCACAAAGAGTTTCTCCCACCATTGCCTGAACCGATTCTCTGAA                         GTCATCAGTGCGTGCCTCACCTGTGCATCAGACTTTAACTACTTCACCATA
genomic: TCTCAAGCACAAAGAGTTTCTCCCACCATTGCCTGAACCGATTCTCTGAAgtaggttttt ... cctataacagGTCATCAGTG-GTGCCTCACCTGTGCATCAGACTTTAACTACTTCACCATA
EST: gi|19453447|gb|BM954857.1|BM954857
EST:     CTGAACCGATTCTCTGAA                         GTCATCAGTGGTGCCTCACCTGTGCATCAGACTTTAACTACTTCACCATAG
genomic: CTGAACCGATTCTCTGAAgtaggttttt ... cctataacagGTCATCAGTGGTGCCTCACCTGTGCATCAGACTTTAACTACTTCACCATAG
EST: gi|8283380|gb|BE020941.1|BE020941
EST:     TCTCAAGCACAAAGAGTTTCTCCCACCATTGCCTGAACCGATTCTCTGAA                         GTCATCAGTGGTGCCTCACCTGTGCATCAGACTTTAACTACTTCACCATAG
genomic: TCTCAAGCACAAAGAGTTTCTCCCACCATTGCCTGAACCGATTCTCTGAAgtaggttttt ... cctataacagGTCATCAGTGGTGCCTCACCTGTGCATCAGACTTTAACTACTTCACCATAG
EST: gi|209701860|gb|BW664565.1|BW664565
EST:     TCTCAAGCACAAAGAGTTTCTCCCACCATTGCCTGAACCGATTCTCTGAA                         GTCATCAGTGGTGCCTCACCTGTGCATCAGACTTTAACTACTTCACCATAG
genomic: TCTCAAGCACAAAGAGTTTCTCCCACCATTGCCTGAACCGATTCTCTGAAgtaggttttt ... cctataacagGTCATCAGTGGTGCCTCACCTGTGCATCAGACTTTAACTACTTCACCATAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctcatttgcaaattttataattttcatgtaaccggctgttacctcctataacagGTCATCAGTGGTGCCTCACCTGTGCATCAGACTTTAACTACTTCACCATAGCCAGCACTGTGAATTGTGAGGGGTCTTTTTCCAAAACCAGAAAGAAACC
                          atgtaac  putative branch site (score: 3)
                                       ttacctcct  putative PPT
     tttgcaaattttataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttggaagaagacaaatgaacagtataggatgaacataggagatcctcatttgcaaattttataattttcatgtaaccggctgttacctcctataacagGTCATCAGTGGTGCCTCACCTGTGCATCAGACTTTAACTACTTCACCATAGCCAGCACTGTGAATTGTGAGGGGTCTTTTTCCAAAACCAGAAAGAAACC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA