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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ggtaaaatacctttgtataaagatttatgtttttatttgctttgtccataattgaattttttatgttaactttaagacattttgccaatgcaGGGGATTCTCAACATTTCATGCTCTGTTTGCATCATTTACGTCATTTTACCTCTTGGTGTTATCAGATATTTTCAACAAGGATTCACATGAAGAACTTGT

Basic information

species Glycine max
transcript GLYMA18G05520.1
intron # 3
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|209701169|gb|BW652202.1|BW652202
EST:     CAAGGGATATGGCAAATTGAGTAGTGCAGAGAAAATTGAATGGAATAACC                         GGGGATTCTCAACATTTCATGCTCTGTTTGCATCATTTACGTCATTTTACC
genomic: CAAGGGATATGGCAAATTGAGTAGTGCAGAGAAAATTGAATGGAATAACCggtaaaatac ... tgccaatgcaGGGGATTCTCAACATTTCATGCTCTGTTTGCATCATTTACGTCATTTTACC
EST: gi|26045687|gb|CA783193.1|CA783193
EST:     CAAGGGATATGGCAAATTGAGTAGTGCAGAGAAAATTGAATGGAATAACC                         GGGGATTCTCAACATTTCATGCTCTGTTTGCATCATTTACGTCATTTTACC
genomic: CAAGGGATATGGCAAATTGAGTAGTGCAGAGAAAATTGAATGGAATAACCggtaaaatac ... tgccaatgcaGGGGATTCTCAACATTTCATGCTCTGTTTGCATCATTTACGTCATTTTACC
EST: gi|151412353|gb|EV282165.1|EV282165
EST:     CAAGGGATATGGCAAATTGAGTAGTGCAGAGAAAATTGAATGGAATAACC                         GGGGATTCTCAACATTTCATGCTCTGTTTGCATCATTTACGTCATTTTACC
genomic: CAAGGGATATGGCAAATTGAGTAGTGCAGAGAAAATTGAATGGAATAACCggtaaaatac ... tgccaatgcaGGGGATTCTCAACATTTCATGCTCTGTTTGCATCATTTACGTCATTTTACC
EST: gi|5687803|gb|AI940875.1|AI940875
EST:     CAAGGGATATGGCAAATTGAGTAGTGCAGAGAAAATTGAATGGAATAACC                         GGGGATTCTCAACATTTCATGCTCTGTTTGCATCATTTACGTCATTTTACC
genomic: CAAGGGATATGGCAAATTGAGTAGTGCAGAGAAAATTGAATGGAATAACCggtaaaatac ... tgccaatgcaGGGGATTCTCAACATTTCATGCTCTGTTTGCATCATTTACGTCATTTTACC
EST: gi|208034657|gb|GD834231.1|GD834231
EST:     CAAGGGATATGGCAAATTGAGTAGTGCAGAGAAAATTGAATGGAATAACC                         GGGGATTCTCAACATTTCATGCTCTGTTTGCATCATTTACGTCATTTTACC
genomic: CAAGGGATATGGCAAATTGAGTAGTGCAGAGAAAATTGAATGGAATAACCggtaaaatac ... tgccaatgcaGGGGATTCTCAACATTTCATGCTCTGTTTGCATCATTTACGTCATTTTACC
EST: gi|7326838|gb|AW620636.1|AW620636
EST:     CAAGGGATATGGCAAATTGAGTAGTGCAGAGAAAATTGAATGGAATAACC                         GGGGATTCTCAACATTTCATGCTCTGTTTGCATCATTTACGTCATTTTACC
genomic: CAAGGGATATGGCAAATTGAGTAGTGCAGAGAAAATTGAATGGAATAACCggtaaaatac ... tgccaatgcaGGGGATTCTCAACATTTCATGCTCTGTTTGCATCATTTACGTCATTTTACC
EST: gi|209701362|gb|BW655958.1|BW655958
EST:     CAAGGGATATGGCAAATTGAGTAGTGCAGAGAAAATTGAATGGAATAACC                         GGGGATTCTCAACATTTCATGCTCTGTTTGCATCATTTACGTCATTTTACC
genomic: CAAGGGATATGGCAAATTGAGTAGTGCAGAGAAAATTGAATGGAATAACCggtaaaatac ... tgccaatgcaGGGGATTCTCAACATTTCATGCTCTGTTTGCATCATTTACGTCATTTTACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgctttgtccataattgaattttttatgttaactttaagacattttgccaatgcaGGGGATTCTCAACATTTCATGCTCTGTTTGCATCATTTACGTCATTTTACCTCTTGGTGTTATCAGATATTTTCAACAAGGATTCACATGAAGAACTTGT
                          tgttaac  putative branch site (score: 2)
                                          ttttgcc  putative PPT
          ataattgaatttttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggtaaaatacctttgtataaagatttatgtttttatttgctttgtccataattgaattttttatgttaactttaagacattttgccaatgcaGGGGATTCTCAACATTTCATGCTCTGTTTGCATCATTTACGTCATTTTACCTCTTGGTGTTATCAGATATTTTCAACAAGGATTCACATGAAGAACTTGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC