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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tctgtaacgtgttatacaagtaatgtagtgtgtacattgcagtgatactcctctagcccatattattcttaagactgacaactcttgttcctgctcacagCTGAGGAGACCCCTGCTGAAGAGGAGCCCAAGTTCAACCCATTTTCTGGAACTGGGAGACGCTTGGATGGAAAACCATTAAATTATCAGCCTCCTCCAGT

Basic information

species Glycine max
transcript GLYMA08G05030.1
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|254318175|gb|GR832343.1|GR832343
EST:     ACCTGAAAAACCCATTGCACCCCTTTCTGCCGGAAAGGCAGCAGTGGCTG                         CTGAGGAGACCCCTGCTGAAGAGGAGCCCAAGTTCAACCCATTTTCTGGAA
genomic: ACCTGAAAAACCCATTGCACCCCTTTCTGCCGGAAAGGCAGCAGTGGCTGgtatgcactt ... ctgctcacagCTGAGGAGACCCCTGCTGAAGAGGAGCCCAAGTTCAACCCATTTTCTGGAA
EST: gi|151397988|gb|EV267861.1|EV267861
EST:     ACCTGAAAAACCCATTGCACCCCTTTCTGCCGGAAAGGCAGCAGTGGCTG                         CTGAGGAGACCCCTGCTGAAGAGGAGCCCAAGTTCAACCCATTTTCTGGAA
genomic: ACCTGAAAAACCCATTGCACCCCTTTCTGCCGGAAAGGCAGCAGTGGCTGgtatgcactt ... ctgctcacagCTGAGGAGACCCCTGCTGAAGAGGAGCCCAAGTTCAACCCATTTTCTGGAA
EST: gi|254318174|gb|GR832342.1|GR832342
EST:     ACCTGAAAAACCCATTGCACCCCTTTCTGCCGGAAAGGCAGCAGTGGCTG                         CTGAGGAGACCCCTGCTGAAGAGGAGCCCAAGTTCAACCCATTTTCTGGAA
genomic: ACCTGAAAAACCCATTGCACCCCTTTCTGCCGGAAAGGCAGCAGTGGCTGgtatgcactt ... ctgctcacagCTGAGGAGACCCCTGCTGAAGAGGAGCCCAAGTTCAACCCATTTTCTGGAA
EST: gi|214004575|gb|DB985590.1|DB985590
EST:     CGGAAAGGCAGCAGTGGCTG                         CTGAGGAGACCCCTGCTGAAGAGGAGCCCAAGTTCAACCCATTTTCTGGAA
genomic: CGGAAAGGCAGCAGTGGCTGgtatgcactt ... ctgctcacagCTGAGGAGACCCCTGCTGAAGAGGAGCCCAAGTTCAACCCATTTTCTGGAA
EST: gi|9563895|gb|BE473404.1|BE473404
EST:     ACCTGAAAAACCCATTGCACCCCTTTCTGCCGGAAAGGCAGCAGTGGCTG                         CTGAGGAGACCCCTGCTGAAGAGGAGCCCAAGTTCAACCCATTTTCTGGAA
genomic: ACCTGAAAAACCCATTGCACCCCTTTCTGCCGGAAAGGCAGCAGTGGCTGgtatgcactt ... ctgctcacagCTGAGGAGACCCCTGCTGAAGAGGAGCCCAAGTTCAACCCATTTTCTGGAA
EST: gi|254326847|gb|GR836456.1|GR836456
EST:     TGAAAAACCCATTGCA-CCCTTTCTGCCGGAAAGGCAGCAGTGGCTG                         CTGAGGGAGA-CCCTGCTGAAGAGGAGCCCAAGTTCAACCCATTTTCTGGA
genomic: TGAAAAACCCATTGCACCCCTTTCTGCCGGAAAGGCAGCAGTGGCTGgtatgcactt ... ctgctcacagCTGA-GGAGACCCCTGCTGAAGAGGAGCCCAAGTTCAACCCATTTTCTGGA
EST: gi|254313715|gb|GR831344.1|GR831344
EST:     ACCTGAAAAACCCATTGCACCCCTTTCTGCCGGAAAGGCAGCAGTGGCTG                         CTGAGGAGACCCCTGCTGAAGAGGAGCCCAAGTTCAACCCATTTTCTGGAA
genomic: ACCTGAAAAACCCATTGCACCCCTTTCTGCCGGAAAGGCAGCAGTGGCTGgtatgcactt ... ctgctcacagCTGAGGAGACCCCTGCTGAAGAGGAGCCCAAGTTCAACCCATTTTCTGGAA
EST: gi|209716429|gb|BW653870.1|BW653870
EST:     CCTGAAAAACCCATTGCACCCCTTTCTGCCGGAAAGGCAGCAGTGGCTG                         CTGAGGAGACCCCTGCTGAAGAGGAGCCCAAGTTCAACCCATTTTCTGGAA
genomic: CCTGAAAAACCCATTGCACCCCTTTCTGCCGGAAAGGCAGCAGTGGCTGgtatgcactt ... ctgctcacagCTGAGGAGACCCCTGCTGAAGAGGAGCCCAAGTTCAACCCATTTTCTGGAA
EST: gi|16348528|gb|BI974123.1|BI974123
EST:     ACCTGAAAAACCCATTGCACCCCTTTCTGCCGGAAAGGCAGCAGTGGCTG                         CTGAGGAGACCCCTGCTGAAGAGGAGCCCAAGTTCAACCCATTTTCTGGAA
genomic: ACCTGAAAAACCCATTGCACCCCTTTCTGCCGGAAAGGCAGCAGTGGCTGgtatgcactt ... ctgctcacagCTGAGGAGACCCCTGCTGAAGAGGAGCCCAAGTTCAACCCATTTTCTGGAA
EST: gi|192326508|gb|FK018815.1|FK018815
EST:     ACCTGAAAAACCCATTGCACCCCTTTCTGCCGGAAAGGCAGCAGTGGCTG                         CTGAGGAGACCCCTGCTGAAGAGGAGCCCAAGTTCAACCCATTTTCTGGAA
genomic: ACCTGAAAAACCCATTGCACCCCTTTCTGCCGGAAAGGCAGCAGTGGCTGgtatgcactt ... ctgctcacagCTGAGGAGACCCCTGCTGAAGAGGAGCCCAAGTTCAACCCATTTTCTGGAA
EST: gi|254313714|gb|GR831343.1|GR831343
EST:     ACCTGAAAAACCCATTGCACCCCTTTCTGCCGGAAAG-CAGCAGTG-CTG                         CTGAG-AGACCCCTGCTGAAGAGGAGCCCA-GT-CA-CCCATTTTCTG
genomic: ACCTGAAAAACCCATTGCACCCCTTTCTGCCGGAAAGGCAGCAGTGGCTGgtatgcactt ... ctgctcacagCTGAGGAGACCCCTGCTGAAGAGGAGCCCAAGTTCAACCCATTTTCTG
EST: gi|9439750|gb|BE440264.1|BE440264
EST:     ACCTGAAAAACCCATTGCACCCCTTTCTGCCGGAAAGGCAGCAGTGGCTG                         CTGAGGAGACCCCTGCTGAAGAGGAGCCCAAGTTCAACCCATTTTCTGGAA
genomic: ACCTGAAAAACCCATTGCACCCCTTTCTGCCGGAAAGGCAGCAGTGGCTGgtatgcactt ... ctgctcacagCTGAGGAGACCCCTGCTGAAGAGGAGCCCAAGTTCAACCCATTTTCTGGAA
EST: gi|6667020|gb|AW278479.1|AW278479
EST:     ACCTGAAAAACCCATTGCACCCCTTTCTGCCGGAAAGGCAGCAGTGGCTG                         CTGAGGAGACCCCTGCTGAAGAGGAGCCCAAGTTCAACCCATTTTCTGGAA
genomic: ACCTGAAAAACCCATTGCACCCCTTTCTGCCGGAAAGGCAGCAGTGGCTGgtatgcactt ... ctgctcacagCTGAGGAGACCCCTGCTGAAGAGGAGCCCAAGTTCAACCCATTTTCTGGAA
EST: gi|9900177|gb|BE609145.1|BE609145
EST:     ACCTGAAAAACCCATTGCACCCCTTTCTGCCGGAAAGGCAGCAGTGGCTG                         CTGAGGAGACCCCTGCTGAAGAGGAGCCCAAGTTCAACCCATTTTCTGGAA
genomic: ACCTGAAAAACCCATTGCACCCCTTTCTGCCGGAAAGGCAGCAGTGGCTGgtatgcactt ... ctgctcacagCTGAGGAGACCCCTGCTGAAGAGGAGCCCAAGTTCAACCCATTTTCTGGAA
EST: gi|7028303|gb|AW458086.1|AW458086
EST:     GAAAAACCCATTGCACCCCTTTCTGCCGGAAAGGCAGCAGTGGCTG                         CTGAGGAGACCCCTGCTGAAGAGGAGCCCAAGTTCAACCCATTTTCTGGAA
genomic: GAAAAACCCATTGCACCCCTTTCTGCCGGAAAGGCAGCAGTGGCTGgtatgcactt ... ctgctcacagCTGAGGAGACCCCTGCTGAAGAGGAGCCCAAGTTCAACCCATTTTCTGGAA
EST: gi|58023681|gb|CX710422.1|CX710422
EST:     ACCTGAAAAACCCATTGCACCCCTTTCTGCCGGAAAGGCAGCAGTGGCTG                         CTGAGGAGACCCCTGCTGAAGAGGAGCCCAAGTTCAACCCATTTTCTGGAA
genomic: ACCTGAAAAACCCATTGCACCCCTTTCTGCCGGAAAGGCAGCAGTGGCTGgtatgcactt ... ctgctcacagCTGAGGAGACCCCTGCTGAAGAGGAGCCCAAGTTCAACCCATTTTCTGGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tactcctctagcccatattattcttaagactgacaactcttgttcctgctcacagCTGAGGAGACCCCTGCTGAAGAGGAGCCCAAGTTCAACCCATTTTCTGGAACTGGGAGACGCTTGGATGGAAAACCATTAAATTATCAGCCTCCTCCAGT
                           gactgac  putative branch site (score: 2)
                                    ctcttgttcctgctc  putative PPT
              atattattcttaaga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tctgtaacgtgttatacaagtaatgtagtgtgtacattgcagtgatactcctctagcccatattattcttaagactgacaactcttgttcctgctcacagCTGAGGAGACCCCTGCTGAAGAGGAGCCCAAGTTCAACCCATTTTCTGGAACTGGGAGACGCTTGGATGGAAAACCATTAAATTATCAGCCTCCTCCAGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC