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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtgcttgtgtgtgtttgtgtgttttttttattcttgtttttggtaagcttttgtatttggatggtttgaattgtgattgttcaattgttgttgttacagATAATGCTGGGACAAATAAAGCAGCATCTAGCAGCACTTCATTGAACACTAAGAGGCTGGATGATGATACTGAGAGTCTAGCTC

Basic information

species Glycine max
transcript GLYMA06G42900.1
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|10237885|gb|BE806773.1|BE806773
EST:     CGTCAACGCCGCCCGCCGCTCCGGCGCCGAAATCGAAACCCTNNNNNNNT                         ATAATGCTGGGACAAATAAAGCAGCATCTAGCAGCACTTCATTGAACACTA
genomic: CGTCAACGCCGCCCGCCGCTCCGGCGCCGAAATCGAAACCCTAAAAAAATgttccttccc ... gttgttacagATAATGCTGGGACAAATAAAGCAGCATCTAGCAGCACTTCATTGAACACTA
EST: gi|120492194|gb|EH220361.1|EH220361
EST:     CGTCAACGCCGCCCGCCGCTCCGGCGCCGAAATCGAAACCCTNNNNNNNT                         ATAATGCTGGGACAAATAAAGCAGCATCTAGCAGCACTTCATTGAACACTA
genomic: CGTCAACGCCGCCCGCCGCTCCGGCGCCGAAATCGAAACCCTAAAAAAATgttccttccc ... gttgttacagATAATGCTGGGACAAATAAAGCAGCATCTAGCAGCACTTCATTGAACACTA
EST: gi|192316373|gb|FK008162.1|FK008162
EST:     CGTCAACGCCGCCCGCCGCTCCGGCGCCGAAATCGAAACCCTNNNNNNNT                         ATAATGCTGGGACAAATAAAGCAGCATCTAGCAGCACTTCATTGAACACTA
genomic: CGTCAACGCCGCCCGCCGCTCCGGCGCCGAAATCGAAACCCTAAAAAAATgttccttccc ... gttgttacagATAATGCTGGGACAAATAAAGCAGCATCTAGCAGCACTTCATTGAACACTA
EST: gi|192302097|gb|FG993467.1|FG993467
EST:     CGTCAACGCCGCCCGCCGCTCCGGCACCGAAATCGAAACCCTNNNNNNNT                         ATAATGCTGGGACAAATAAAGCAGCATCTAGCAGCACTTCATTGAACACTA
genomic: CGTCAACGCCGCCCGCCGCTCCGGCGCCGAAATCGAAACCCTAAAAAAATgttccttccc ... gttgttacagATAATGCTGGGACAAATAAAGCAGCATCTAGCAGCACTTCATTGAACACTA
EST: gi|192329167|gb|FK019754.1|FK019754
EST:     CGTCAACGCCGCCCGCCGCTCCGGCGCCGAAATCGAAACCCTNNNNNNNT                         ATAATGCTGGGACAAATAAAGCAGCATCTAGCAGCACTTCATTGAACACTA
genomic: CGTCAACGCCGCCCGCCGCTCCGGCGCCGAAATCGAAACCCTAAAAAAATgttccttccc ... gttgttacagATAATGCTGGGACAAATAAAGCAGCATCTAGCAGCACTTCATTGAACACTA
EST: gi|192302223|gb|FG996617.1|FG996617
EST:     CGTCAACGCCGCCCGCCGCTCCGGCGCCGAAATCGAAACCCTNNNNNNNT                         ATAATGCTGGGACAAATAAAGCAGCATCTAGCAGCACTTCATTGAACACTA
genomic: CGTCAACGCCGCCCGCCGCTCCGGCGCCGAAATCGAAACCCTAAAAAAATgttccttccc ... gttgttacagATAATGCTGGGACAAATAAAGCAGCATCTAGCAGCACTTCATTGAACACTA
EST: gi|18735226|gb|BM528641.1|BM528641
EST:     CGTCAACGCCGCCCGCCGCTCCGGCGCCGAAATCGAAACCCT-AAAAAAT                         ATAATGCTGGGACAAATAAAGCAGCATCTAGCAGCACTTCATTGAACACTA
genomic: CGTCAACGCCGCCCGCCGCTCCGGCGCCGAAATCGAAACCCTAAAAAAATgttccttccc ... gttgttacagATAATGCTGGGACAAATAAAGCAGCATCTAGCAGCACTTCATTGAACACTA
EST: gi|192315428|gb|FK007774.1|FK007774
EST:     CGTCAACGCCGCCCGCCGCTCCGGCGCCGAAATCGAAACCCTNNNNNNNT                         ATAATGCTGGGACAAATAAAGCAGCATCTAGCAGCACTTCATTGAACACTA
genomic: CGTCAACGCCGCCCGCCGCTCCGGCGCCGAAATCGAAACCCTAAAAAAATgttccttccc ... gttgttacagATAATGCTGGGACAAATAAAGCAGCATCTAGCAGCACTTCATTGAACACTA
EST: gi|21888229|gb|BQ741433.1|BQ741433
EST:     CGTCAACGCCGCCCGCCGCTCCGGCGCCGAAATCGAAACCCT--NNNNNN                         NTAATGCTGGGACAAATAAAGCAGCATCTAGCAGCACTTCATTGAACACTA
genomic: CGTCAACGCCGCCCGCCGCTCCGGCGCCGAAATCGAAACCCTAAAAAAATgttccttccc ... gttgttacagATAATGCTGGGACAAATAAAGCAGCATCTAGCAGCACTTCATTGAACACTA
EST: gi|7638872|gb|AW733264.1|AW733264
EST:     CGTCAACGCCGCCCGCCGCTCCGGCGCCGAAATCGAAACCCTNNNNNNNT                         ATAATGCTGGGACAAATAAAGCAGCATCTAGCAGCACTTCATTGAACACTA
genomic: CGTCAACGCCGCCCGCCGCTCCGGCGCCGAAATCGAAACCCTAAAAAAATgttccttccc ... gttgttacagATAATGCTGGGACAAATAAAGCAGCATCTAGCAGCACTTCATTGAACACTA
EST: gi|10231268|gb|BE800165.1|BE800165
EST:     CGTCAACGCCGCCCGCCGCTCCGGCGCCGAAATCGAAACCCTNNNNNNNT                         ATAATGCTGGGACAAATAAAGCAGCATCTAGCAGCACTTCATTGAACACTA
genomic: CGTCAACGCCGCCCGCCGCTCCGGCGCCGAAATCGAAACCCTAAAAAAATgttccttccc ... gttgttacagATAATGCTGGGACAAATAAAGCAGCATCTAGCAGCACTTCATTGAACACTA
EST: gi|7638873|gb|AW733265.1|AW733265
EST:     CGTCAACGCCGCCCGCCGCTCCGGCGCCGAAATCGAAACCCTNNNNNNNT                         ATAATGCTGGGACAAATAAAGCAGCATCTAGCAGCACTTCATTGAACACTA
genomic: CGTCAACGCCGCCCGCCGCTCCGGCGCCGAAATCGAAACCCTAAAAAAATgttccttccc ... gttgttacagATAATGCTGGGACAAATAAAGCAGCATCTAGCAGCACTTCATTGAACACTA
EST: gi|192316374|gb|FK008163.1|FK008163
EST:     CGTCAACGCCGCCCGCCGCTCCGGCGCCGAAATCGAAACCCTNNNNNNNT                         ATAATGCTGGGACAAATAAAGCAGCATCTAGCAGCACTTCATTGAACACTA
genomic: CGTCAACGCCGCCCGCCGCTCCGGCGCCGAAATCGAAACCCTAAAAAAATgttccttccc ... gttgttacagATAATGCTGGGACAAATAAAGCAGCATCTAGCAGCACTTCATTGAACACTA
EST: gi|17023513|gb|BM094547.1|BM094547
EST:     GTCAACGCCGCCCGCCGCTCCGGCGCCGAAATCGAAACCCTNNNNNNNNT                         ATAATGCTGGGACAAATAAAGCAGCATCTAGCAGCACTTCATTGAACACT
genomic: GTCAACGCCGCCCGCCGCTCCGGCGCCGAAATCGAAACCCT-AAAAAAATgttccttccc ... gttgttacagATAATGCTGGGACAAATAAAGCAGCATCTAGCAGCACTTCATTGAACACT
EST: gi|254339962|gb|GR858087.1|GR858087
EST:     CGTCAACGCCGCCCGCCGCTCCGGCGCCGAAATCGAAACCCTNNNNNNNT                         ATAATGCTGGGACAAATAAAGCAGCATCTAGCAGCACTTCATTGAACACTA
genomic: CGTCAACGCCGCCCGCCGCTCCGGCGCCGAAATCGAAACCCTAAAAAAATgttccttccc ... gttgttacagATAATGCTGGGACAAATAAAGCAGCATCTAGCAGCACTTCATTGAACACTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagcttttgtatttggatggtttgaattgtgattgttcaattgttgttgttacagATAATGCTGGGACAAATAAAGCAGCATCTAGCAGCACTTCATTGAACACTAAGAGGCTGGATGATGATACTGAGAGTCTAGCTC
     tttgtattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgtgcttgtgtgtgtttgtgtgttttttttattcttgtttttggtaagcttttgtatttggatggtttgaattgtgattgttcaattgttgttgttacagATAATGCTGGGACAAATAAAGCAGCATCTAGCAGCACTTCATTGAACACTAAGAGGCTGGATGATGATACTGAGAGTCTAGCTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - tgtgtgt
- - - -gtgtgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtgattg