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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtgtgattttttactagaattctttgatgagagtaaattcaccaaagatgttgttcttttcagCTTGCTTTAGGAGCCGTAAATTCTGAGGTTCTTCTTGGAAG

Basic information

species Glycine max
transcript GLYMA08G41630.1
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|209713825|gb|BW684017.1|BW684017
EST:     TGATGGAGGTCTAACCNNNNNNNGACACTGCTGAAGTCTATGGCTCTGGG                         CTTGCTTTAGGAGCCGTAAATTCTGAGGTTCTTCTTGGAAG
genomic: TGATGGAGGTCTAACCTTTTTT-GACACTGCTGAAGTCTATGGCTCTGGGgtgagtgtga ... ttcttttcagCTTGCTTTAGGAGCCGTAAATTCTGAGGTTCTTCTTGGAAG
EST: gi|209701051|gb|BW652163.1|BW652163
EST:     TTGATGGAGGTCTAACCTTTTTTGACACTGCTGAAGTCTATGGCTCTGGG                         CTTGCTTTAGGAGCCGTAAATTCTGAGGTTCTTCTTGGAAG
genomic: TTGATGGAGGTCTAACCTTTTTTGACACTGCTGAAGTCTATGGCTCTGGGgtgagtgtga ... ttcttttcagCTTGCTTTAGGAGCCGTAAATTCTGAGGTTCTTCTTGGAAG
EST: gi|22524681|gb|BU083492.1|BU083492
EST:     TTGATGGAGGTCTAACCTTTTTTGACACTGCTGAAGTCTATGGCTCTGGG                         CTTGCTTTAGGAGCCGTAAATTCTGAGGTTCTTCTTGGAAG
genomic: TTGATGGAGGTCTAACCTTTTTTGACACTGCTGAAGTCTATGGCTCTGGGgtgagtgtga ... ttcttttcagCTTGCTTTAGGAGCCGTAAATTCTGAGGTTCTTCTTGGAAG
EST: gi|9259707|gb|BE347854.1|BE347854
EST:     TTGATGGAGGTCTAACCTTATTTGACACTGCTGAAGTCTATGGCTCTGGG                         CTTGCTTTAGGAGCCGTACATTCTGAGGTTCTTCTTGGAAG
genomic: TTGATGGAGGTCTAACCTTTTTTGACACTGCTGAAGTCTATGGCTCTGGGgtgagtgtga ... ttcttttcagCTTGCTTTAGGAGCCGTAAATTCTGAGGTTCTTCTTGGAAG
EST: gi|120530488|gb|EH258621.1|EH258621
EST:     TTGATGGAGGTCTAACCTTTTTTGACACTGCTGAAGTCTATGGCTCTGGG                         CTTGCTTTAGGAGCCGTAAATTCTGAGGTTCTTCTTGGAAG
genomic: TTGATGGAGGTCTAACCTTTTTTGACACTGCTGAAGTCTATGGCTCTGGGgtgagtgtga ... ttcttttcagCTTGCTTTAGGAGCCGTAAATTCTGAGGTTCTTCTTGGAAG
EST: gi|209706849|gb|BW661485.1|BW661485
EST:     TTGATGGAGGTCTAACCTTTTTTGACACTGCTGAAGTCTATGGCTCTGGG                         CTTGCTTTAGGAGCCGTAAATTCTGAGGTTCTTCTTGGAAG
genomic: TTGATGGAGGTCTAACCTTTTTTGACACTGCTGAAGTCTATGGCTCTGGGgtgagtgtga ... ttcttttcagCTTGCTTTAGGAGCCGTAAATTCTGAGGTTCTTCTTGGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttactagaattctttgatgagagtaaattcaccaaagatgttgttcttttcagCTTGCTTTAGGAGCCGTAAATTCTGAGGTTCTTCTTGGAAG
             ctttgat  putative branch site (score: 5)
                                          ttgttcttttc  putative PPT
         aattcttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtgtgattttttactagaattctttgatgagagtaaattcaccaaagatgttgttcttttcagCTTGCTTTAGGAGCCGTAAATTCTGAGGTTCTTCTTGGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG