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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttttagtgaaattgttaacaatgttgatgatcatgttctgttggaccataacttatataaaaccatttggtttgcctttgctgtgtgttgtctttgaagATGAGTGATGAGAATAATGAAGAACCTTGCGAAAACCGTCCGGTTCCCCGTTTAAATGAAAGGATTCTTTCATCTTTGTCTAGGAGATCAGTTGCTGCTC

Basic information

species Glycine max
transcript GLYMA07G05390.1
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|254344222|gb|GR851025.1|GR851025
EST:     TTATTTTTTGTTGAAAAAAGTGTTTGCTTTTGCCGTTGTACAAG                         ATGAGTGATGAGAATAATGAAGAACCTTGCGAAAACCGTCCGGTTCCCCGT
genomic: TTATTTTTTGTTGAAAAAAGTGTTTGCTTTTGCCGTTGTACAAGgtttgttatt ... gtctttgaagATGAGTGATGAGAATAATGAAGAACCTTGCGAAAACCGTCCGGTTCCCCGT
EST: gi|17400209|gb|BM176991.1|BM176991
EST:     TTTTGTTGAAAAAAGTGTTTGCTTTTGCCGTTGTACAAG                         ATGAGTGATGAGAATAATGAAGAACCTTGCGAAAACCGTCCGGTTCCCCGT
genomic: TTTTGTTGAAAAAAGTGTTTGCTTTTGCCGTTGTACAAGgtttgttatt ... gtctttgaagATGAGTGATGAGAATAATGAAGAACCTTGCGAAAACCGTCCGGTTCCCCGT
EST: gi|254315134|gb|GR830127.1|GR830127
EST:     TTGCTTTTATTTTTTGTTGAAAAAAGTGTTTGCTTTTGCCGTTGTACAAG                         ATGAGTGATGAGAATAATGAAGAACCTTGCGAAAACCGTCCGGTTCCCCGT
genomic: TTGCTTTTATTTTTTGTTGAAAAAAGTGTTTGCTTTTGCCGTTGTACAAGgtttgttatt ... gtctttgaagATGAGTGATGAGAATAATGAAGAACCTTGCGAAAACCGTCCGGTTCCCCGT
EST: gi|209698574|gb|BW652427.1|BW652427
EST:     TTGCTTTTATTTTTTGTTGAAAAAAGTGTTTGCTTTTGCCGTTGTACAAG                         ATGAGTGATGAGAATAATGAAGAACCTTGCGAAAACCGTCCGGTTCCCCGT
genomic: TTGCTTTTATTTTTTGTTGAAAAAAGTGTTTGCTTTTGCCGTTGTACAAGgtttgttatt ... gtctttgaagATGAGTGATGAGAATAATGAAGAACCTTGCGAAAACCGTCCGGTTCCCCGT
EST: gi|151399288|gb|EV269159.1|EV269159
EST:     TTGCTTTTATTTTTTGTTGAAAAAAGTGTTTGCTTTTGCCGTTGTACAAG                         ATGAGTGATGAGAATAATGAAGAACCTTGCGAAAACCGTCCGGTTCCCCGT
genomic: TTGCTTTTATTTTTTGTTGAAAAAAGTGTTTGCTTTTGCCGTTGTACAAGgtttgttatt ... gtctttgaagATGAGTGATGAGAATAATGAAGAACCTTGCGAAAACCGTCCGGTTCCCCGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

accataacttatataaaaccatttggtttgcctttgctgtgtgttgtctttgaagATGAGTGATGAGAATAATGAAGAACCTTGCGAAAACCGTCCGGTTCCCCGTTTAAATGAAAGGATTCTTTCATCTTTGTCTAGGAGATCAGTTGCTGCTC
 ccataac  putative branch site (score: 3)
                                           ttgtcttt  putative PPT
        ttatataaaaccattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttttagtgaaattgttaacaatgttgatgatcatgttctgttggaccataacttatataaaaccatttggtttgcctttgctgtgtgttgtctttgaagATGAGTGATGAGAATAATGAAGAACCTTGCGAAAACCGTCCGGTTCCCCGTTTAAATGAAAGGATTCTTTCATCTTTGTCTAGGAGATCAGTTGCTGCTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT