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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttcatgattaagaatcttgcgattttgaatgtggttgggtatgactaatatattttcatatatttattgtaactggatctgttctgcctcttgtattagGTCTTGCTATCATGAGCAGATTGACCGTGAACAGGTTCCATCAATCAGACTTCGGTTTTGAGGACAGATCAATTAACTTTGATCAGGTTGATATGTAGGG

Basic information

species Glycine max
transcript GLYMA15G09900.1
intron # 26
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|51335931|gb|CO979797.1|CO979797
EST:     CCAAATATCCCCAGACGGATGGTGGTCATCGCTTTATAAAATGATTGAAG                         GTCTTGCTATCATGAGCAGATTGACCGTGAACAGGTTCCATCAATCAGACT
genomic: CCAAATATCCCCAGACGGATGGTGGTCATCGCTTTATAAAATGATTGAAGgtattgtttt ... cttgtattagGTCTTGCTATCATGAGCAGATTGACCGTGAACAGGTTCCATCAATCAGACT
EST: gi|58018586|gb|CX705328.1|CX705328
EST:     CCAAATATCCCCAGACGGATGGTGGTCATCGCTTTATAAAATGATTGAAG                         GTCTTGCTATCATGAGCAGATTGACCGTGAACAGGTTCCATCAATCAGACT
genomic: CCAAATATCCCCAGACGGATGGTGGTCATCGCTTTATAAAATGATTGAAGgtattgtttt ... cttgtattagGTCTTGCTATCATGAGCAGATTGACCGTGAACAGGTTCCATCAATCAGACT
EST: gi|8283752|gb|BE021311.1|BE021311
EST:     CCAAATATCCCCAGACGGATGGTGGTCATCGCTTTATAAAATGATTGAAG                         GTCTTGCTATCATGAGCAGATTGACC
genomic: CCAAATATCCCCAGACGGATGGTGGTCATCGCTTTATAAAATGATTGAAGgtattgtttt ... cttgtattagGTCTTGCTATCATGAGCAGATTGACC
EST: gi|58017333|gb|CX704075.1|CX704075
EST:     CCAAATATCCCCAGACGGATGGTGGTCATCGCTTTATAAAATGATTGAAG                         GTCTTGCTATCATGAGCAGATTGACCGTGAACAGGTTCCATCAATCAGACT
genomic: CCAAATATCCCCAGACGGATGGTGGTCATCGCTTTATAAAATGATTGAAGgtattgtttt ... cttgtattagGTCTTGCTATCATGAGCAGATTGACCGTGAACAGGTTCCATCAATCAGACT
EST: gi|17402173|gb|BM178955.1|BM178955
EST:     CCAAATATCCCCAGACGGATGGTGGTCATCGCTTTATAAAATGATTGAAG                         GTCTTGCTATCATGAGCAGATTGACCGTGAACAGGTTCCATCAATCAGACT
genomic: CCAAATATCCCCAGACGGATGGTGGTCATCGCTTTATAAAATGATTGAAGgtattgtttt ... cttgtattagGTCTTGCTATCATGAGCAGATTGACCGTGAACAGGTTCCATCAATCAGACT
EST: gi|18040941|gb|BM309235.1|BM309235
EST:     CCAAATATCCCCAGACGGATGGTGGTCATCGCTTTATAAAATGATTGAAN                         GTCTTGCTATCATGAGCAGATTGACCGTGAACAGGTTCCATCAATCAGACT
genomic: CCAAATATCCCCAGACGGATGGTGGTCATCGCTTTATAAAATGATTGAAGgtattgtttt ... cttgtattagGTCTTGCTATCATGAGCAGATTGACCGTGAACAGGTTCCATCAATCAGACT
EST: gi|9900742|gb|BE609710.1|BE609710
EST:     CCAAATATCCCCAGACGGATGGTGGTCATCGCTATATAAAATGATTGAAT                         GTCTTGCTATCATGAGCAGATTGACCGTGAACAGGTTCCATCACTCAGACT
genomic: CCAAATATCCCCAGACGGATGGTGGTCATCGCTTTATAAAATGATTGAAGgtattgtttt ... cttgtattagGTCTTGCTATCATGAGCAGATTGACCGTGAACAGGTTCCATCAATCAGACT
EST: gi|8669733|gb|BE190840.1|BE190840
EST:     CCAAATATCCCCAGACGGATGGTGGTCATCGCTTTATAAAATGATGGAAG                         GTCTTGCTATCATGAGCAGATTGACCGTGAACAGGTTCCATCAATCAGACT
genomic: CCAAATATCCCCAGACGGATGGTGGTCATCGCTTTATAAAATGATTGAAGgtattgtttt ... cttgtattagGTCTTGCTATCATGAGCAGATTGACCGTGAACAGGTTCCATCAATCAGACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctaatatattttcatatatttattgtaactggatctgttctgcctcttgtattagGTCTTGCTATCATGAGCAGATTGACCGTGAACAGGTTCCATCAATCAGACTTCGGTTTTGAGGACAGATCAATTAACTTTGATCAGGTTGATATGTAGGG
                      ttgtaac  putative branch site (score: 2)
                                 tctgttctgcctctt  putative PPT
     atattttcatatattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttcatgattaagaatcttgcgattttgaatgtggttgggtatgactaatatattttcatatatttattgtaactggatctgttctgcctcttgtattagGTCTTGCTATCATGAGCAGATTGACCGTGAACAGGTTCCATCAATCAGACTTCGGTTTTGAGGACAGATCAATTAACTTTGATCAGGTTGATATGTAGGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA
-ttcatga
- - - - - - - - - - - - - tgaatgt
- - - - - - - - - - - - - - - - -ggttggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtaactg