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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactttttgcttcctttttgtctaatgttcagttaattttgctaacatgttaatgttaggaaaagtacatggatggtttatctatcacttaataatgtttgaaagcaatattttgactaagattctaatcttcatttttccacagGCATTTGGGGACGATTTCCTTGAAGACAAGCTAAAACCTTTTTACAAGTCAGATCCAGTTCCTGAAAGT

Basic information

species Glycine max
transcript GLYMA12G29550.1
intron # 7
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|120534021|gb|EH262154.1|EH262154
EST:     ATGGNNNNNNNTTTGTGCTTGATGGAGAGGTGACTGCTGACAAAATTAAG                         GCATTTGGGGACGATTTCCTTGAAGACAAGCTAAAACCTTTTTACAAGTCA
genomic: ATGGAAAAAAATTTGTGCTTGATGGAGAGGTGACTGCTGACAAAATTAAGgtactttttg ... ttttccacagGCATTTGGGGACGATTTCCTTGAAGACAAGCTAAAACCTTTTTACAAGTCA
EST: gi|58017030|gb|CX703772.1|CX703772
EST:     ATGGNNNNNNNTTTGTGCTTGATGGAGAGGTGACTGCTGACAAAATTAAG                         GCATTTGGGGACGATTTCCTTGAAGACAAGCTAAAACCTTTTTACAAGTCA
genomic: ATGGAAAAAAATTTGTGCTTGATGGAGAGGTGACTGCTGACAAAATTAAGgtactttttg ... ttttccacagGCATTTGGGGACGATTTCCTTGAAGACAAGCTAAAACCTTTTTACAAGTCA
EST: gi|254323994|gb|GR836226.1|GR836226
EST:     TGAT-GAGA-GTGACTGCTGACAAAA-T-AG                         GCATTTGGGGACGATTTCCTTGAAGACAAGCTAAAACCTTTTTACAAGTCA
genomic: TGATGGAGAGGTGACTGCTGACAAAATTAAGgtactttttg ... ttttccacagGCATTTGGGGACGATTTCCTTGAAGACAAGCTAAAACCTTTTTACAAGTCA
EST: gi|21889841|gb|BQ743054.1|BQ743054
EST:     ATGGNNNNNNNTTTGTGCTTGATGGAGAGGTGACTGCTGACAAAATTAAG                         GCATTTGGGGACGATTTCCTTGAAGACAAGCTAAAACCTTTTTACAAGTCA
genomic: ATGGAAAAAAATTTGTGCTTGATGGAGAGGTGACTGCTGACAAAATTAAGgtactttttg ... ttttccacagGCATTTGGGGACGATTTCCTTGAAGACAAGCTAAAACCTTTTTACAAGTCA
EST: gi|19052857|gb|BM731524.1|BM731524
EST:     ATGGNNNNNNNTTTGTGCTTGATGGAGAGGTGACTGCTGACAAAATTAAG                         GCATTTGGGGACGATTTCCTTGAAGACAAGCTAAAACCTTTTTACAAGTCA
genomic: ATGGAAAAAAATTTGTGCTTGATGGAGAGGTGACTGCTGACAAAATTAAGgtactttttg ... ttttccacagGCATTTGGGGACGATTTCCTTGAAGACAAGCTAAAACCTTTTTACAAGTCA
EST: gi|9902983|gb|BE611951.1|BE611951
EST:     ATGGNNNNNNNTTTGTGCTTGATGGAGAGGTGACTGCTGACAAAATTAAG                         GCATTTGGGGACGATTTCCTTGAAGACAAGCTAAAACCTTTTTACAAGTCA
genomic: ATGGAAAAAAATTTGTGCTTGATGGAGAGGTGACTGCTGACAAAATTAAGgtactttttg ... ttttccacagGCATTTGGGGACGATTTCCTTGAAGACAAGCTAAAACCTTTTTACAAGTCA
EST: gi|57575124|gb|CX548099.1|CX548099
EST:     ATGGNNNNNNNTTTGTGCTTGATGGAGAGGTGACTGCTGACAAAATTAAG                         GCATTTGGGGACGATTTCCTTGAAGACAAGCTAAAACCTTTTTACAAGTCA
genomic: ATGGAAAAAAATTTGTGCTTGATGGAGAGGTGACTGCTGACAAAATTAAGgtactttttg ... ttttccacagGCATTTGGGGACGATTTCCTTGAAGACAAGCTAAAACCTTTTTACAAGTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aataatgtttgaaagcaatattttgactaagattctaatcttcatttttccacagGCATTTGGGGACGATTTCCTTGAAGACAAGCTAAAACCTTTTTACAAGTCAGATCCAGTTCCTGAAAGT
                                ttctaat  putative branch site (score: 2)
                                      tcttcatttttccac  CT-rich tract
                aatattttgactaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtactttttgcttcctttttgtctaatgttcagttaattttgctaacatgttaatgttaggaaaagtacatggatggtttatctatcacttaataatgtttgaaagcaatattttgactaagattctaatcttcatttttccacagGCATTTGGGGACGATTTCCTTGAAGACAAGCTAAAACCTTTTTACAAGTCAGATCCAGTTCCTGAAAGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT