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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCAAAGCCTTCACCTATATATACAGCCATCACACACTTTAACCATTCGTCCACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACGgtaattccttgcatttcttctccttgttcctctttgtttcttgtttctgcgtgttccgtacaatattctgagccataaagcttcgattttgatctgaatt...

Basic information

species Glycine max
transcript GLYMA02G04120.2
intron # 1
splice site 5'
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|209701247|gb|BW652225.1|BW652225
EST:     CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACG                         AGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
genomic: CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACGgtaattcctt ... gatgaaatagAGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
EST: gi|192305509|gb|FG994303.1|FG994303
EST:     CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACG                         AGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
genomic: CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACGgtaattcctt ... gatgaaatagAGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
EST: gi|213590555|gb|DB973314.1|DB973314
EST:     CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACG                         AGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
genomic: CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACGgtaattcctt ... gatgaaatagAGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
EST: gi|5753577|gb|AI960864.1|AI960864
EST:     AACAACCACTTATCCCCTGTCTCCTTCTAACG                         AGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
genomic: AACAACCACTTATCCCCTTTCTCCTTCTAACGgtaattcctt ... gatgaaatagAGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
EST: gi|213601137|gb|DB956473.1|DB956473
EST:     CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACG                         AGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
genomic: CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACGgtaattcctt ... gatgaaatagAGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
EST: gi|213598625|gb|DB964247.1|DB964247
EST:     CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACG                         AGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
genomic: CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACGgtaattcctt ... gatgaaatagAGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
EST: gi|20498839|gb|BQ273769.1|BQ273769
EST:     CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACG                         AGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
genomic: CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACGgtaattcctt ... gatgaaatagAGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
EST: gi|17519242|gb|BM188284.1|BM188284
EST:     CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACG                         AGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
genomic: CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACGgtaattcctt ... gatgaaatagAGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
EST: gi|192306307|gb|FG995101.1|FG995101
EST:     CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACG                         AGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGC
genomic: CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACGgtaattcctt ... gatgaaatagAGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
EST: gi|7589883|gb|AW705648.1|AW705648
EST:     TCCCCTTTCTCCTTCTAACG                         AGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
genomic: TCCCCTTTCTCCTTCTAACGgtaattcctt ... gatgaaatagAGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
EST: gi|298178311|gb|HO024046.1|HO024046
EST:     ACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACG                         AGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGC
genomic: ACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACGgtaattcctt ... gatgaaatagAGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
EST: gi|9986176|gb|BE660284.1|BE660284
EST:     CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACG                         AGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
genomic: CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACGgtaattcctt ... gatgaaatagAGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
EST: gi|151410816|gb|EV280631.1|EV280631
EST:     CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACG                         AGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
genomic: CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACGgtaattcctt ... gatgaaatagAGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
EST: gi|298174335|gb|HO017671.1|HO017671
EST:     CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACG                         AGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGC
genomic: CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACGgtaattcctt ... gatgaaatagAGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
EST: gi|213600410|gb|DB970304.1|DB970304
EST:     CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACG                         AGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
genomic: CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACGgtaattcctt ... gatgaaatagAGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
EST: gi|209697931|gb|BW670133.1|BW670133
EST:     CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACG                         AGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
genomic: CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACGgtaattcctt ... gatgaaatagAGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
EST: gi|213600535|gb|DB960083.1|DB960083
EST:     CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACG                         AGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
genomic: CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACGgtaattcctt ... gatgaaatagAGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
EST: gi|10847942|gb|BF070520.1|BF070520
EST:     CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACG                         AGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
genomic: CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACGgtaattcctt ... gatgaaatagAGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
EST: gi|213593143|gb|DB969885.1|DB969885
EST:     CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACG                         AGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
genomic: CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACGgtaattcctt ... gatgaaatagAGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
EST: gi|213601183|gb|DB956491.1|DB956491
EST:     CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACG                         AGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
genomic: CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACGgtaattcctt ... gatgaaatagAGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
EST: gi|208037383|gb|GD835312.1|GD835312
EST:     CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACG                         AGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
genomic: CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACGgtaattcctt ... gatgaaatagAGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
EST: gi|209699583|gb|BW678086.1|BW678086
EST:     CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACG                         AGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT
genomic: CACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACGgtaattcctt ... gatgaaatagAGTGAGGAAAAATGGCGCGTAAGAAGATCAGAGAGTATGACTCAAAGAGGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCAAAGCCTTCACCTATATATACAGCCATCACACACTTTAACCATTCGTCCACCCGTTCGTTAGATCTAACAACCACTTATCCCCTTTCTCCTTCTAACGgtaattccttgcatttcttctccttgttcctctttgtttcttgtttctgcgtgttccgtacaatattctgagccataaagcttcgattttgatctgaatt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcttctcc