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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgaagctagttgacttgctgagattttgaaacgttttcatgaggtgcctttaattaaggaatattctgatcatgtacactgtgccctgtgtttttcttagGAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAACGTGTCGCAGTCAAATACTTCTCTGAAGACTGGGCAACGAATAGTGCCA

Basic information

species Glycine max
transcript GLYMA09G02270.3
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|192332965|gb|FK024614.1|FK024614
EST:     GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCAT                         GAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
genomic: GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCATgtaagtctct ... tttttcttagGAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
EST: gi|120493426|gb|EH221593.1|EH221593
EST:     GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCAT                         GAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
genomic: GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCATgtaagtctct ... tttttcttagGAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
EST: gi|120492487|gb|EH220654.1|EH220654
EST:     GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCAT                         GAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
genomic: GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCATgtaagtctct ... tttttcttagGAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
EST: gi|14259369|gb|BG882277.1|BG882277
EST:     GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCAT                         GAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
genomic: GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCATgtaagtctct ... tttttcttagGAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
EST: gi|298184953|gb|HO030166.1|HO030166
EST:     GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCAT                         GAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
genomic: GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCATgtaagtctct ... tttttcttagGAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
EST: gi|151410972|gb|EV280787.1|EV280787
EST:     GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCAT                         GAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
genomic: GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCATgtaagtctct ... tttttcttagGAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
EST: gi|12689807|gb|BG156143.1|BG156143
EST:     GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCAT                         GAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
genomic: GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCATgtaagtctct ... tttttcttagGAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
EST: gi|151405407|gb|EV275221.1|EV275221
EST:     GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCAT                         GAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
genomic: GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCATgtaagtctct ... tttttcttagGAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
EST: gi|298191889|gb|HO035971.1|HO035971
EST:     GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCAT                         GAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
genomic: GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCATgtaagtctct ... tttttcttagGAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
EST: gi|298186013|gb|HO031174.1|HO031174
EST:     GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCAT                         GAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
genomic: GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCATgtaagtctct ... tttttcttagGAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
EST: gi|19348506|gb|BM893038.1|BM893038
EST:     GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCAT                         GAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
genomic: GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCATgtaagtctct ... tttttcttagGAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
EST: gi|38192921|gb|CF922127.1|CF922127
EST:     GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCAT                         GAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
genomic: GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCATgtaagtctct ... tttttcttagGAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
EST: gi|213607061|gb|DB965059.1|DB965059
EST:     GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCAT                         GAGACATGCCCTTCCGTAAAGAACTTCCTTCTTTTGGATTCTGATGGGAAA
genomic: GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCATgtaagtctct ... tttttcttagGAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
EST: gi|14990780|gb|BI316453.1|BI316453
EST:     CTTCTCTTTGTTCCGTTCCGCGACCATGTCTCAT                         GAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
genomic: CTTCTCTTTGTTCCGTTCCGCGACCATGTCTCATgtaagtctct ... tttttcttagGAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
EST: gi|298178097|gb|HO027480.1|HO027480
EST:     GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCAT                         GAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
genomic: GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCATgtaagtctct ... tttttcttagGAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
EST: gi|298166245|gb|HO009216.1|HO009216
EST:     GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCAT                         GAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
genomic: GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCATgtaagtctct ... tttttcttagGAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
EST: gi|38192996|gb|CF922202.1|CF922202
EST:     GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCAT                         GAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
genomic: GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCATgtaagtctct ... tttttcttagGAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
EST: gi|298179376|gb|HO027847.1|HO027847
EST:     GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCAT                         GAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
genomic: GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCATgtaagtctct ... tttttcttagGAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
EST: gi|298182838|gb|HO031573.1|HO031573
EST:     GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCAT                         GAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
genomic: GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCATgtaagtctct ... tttttcttagGAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
EST: gi|14990797|gb|BI316470.1|BI316470
EST:     CTTCTCTTTGTTCCGTTCCGCGACCATGTCTCAT                         GAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
genomic: CTTCTCTTTGTTCCGTTCCGCGACCATGTCTCATgtaagtctct ... tttttcttagGAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
EST: gi|151406134|gb|EV275949.1|EV275949
EST:     CGTTCCGCGACCATGTCTCAT                         GAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
genomic: CGTTCCGCGACCATGTCTCATgtaagtctct ... tttttcttagGAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
EST: gi|192321195|gb|FK014285.1|FK014285
EST:     GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCAT                         GGGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
genomic: GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCATgtaagtctct ... tttttcttagGAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
EST: gi|120532300|gb|EH260433.1|EH260433
EST:     CAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCAT                         GAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
genomic: CAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCATgtaagtctct ... tttttcttagGAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
EST: gi|298170470|gb|HO019094.1|HO019094
EST:     GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCAT                         GAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
genomic: GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCATgtaagtctct ... tttttcttagGAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
EST: gi|298166774|gb|HO010213.1|HO010213
EST:     GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCAT                         GAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA
genomic: GAGCAAGAGCCTTCTCTTTGTTCCGTTCCGCGACCATGTCTCATgtaagtctct ... tttttcttagGAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcctttaattaaggaatattctgatcatgtacactgtgccctgtgtttttcttagGAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAACGTGTCGCAGTCAAATACTTCTCTGAAGACTGGGCAACGAATAGTGCCA
                  ttctgat  putative branch site (score: 3)
                                      ccctgtgtttttctt  putative PPT
     taattaaggaatatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgaagctagttgacttgctgagattttgaaacgttttcatgaggtgcctttaattaaggaatattctgatcatgtacactgtgccctgtgtttttcttagGAGACATGCCCTTCCGTAAAGAACGTCCTTCTTTTGGATTCTGATGGGAAACGTGTCGCAGTCAAATACTTCTCTGAAGACTGGGCAACGAATAGTGCCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - ttgctga
- - - - - - - - - - - - - - - - - - tcatgag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgtac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -actgtgc