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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAATTGAGGATGAGATCCTTTCCACTTCCTTCTACCTGCTGACAATGGGCAACTGCGGTACTAGAGACGAGGCTGCCGTCTTCACTCCTCAAGCTCAAGgtttctctttctctctatctctgtctctcgccgtttcttttttcctgatctctctcctctttggttcacctcgcag

Basic information

species Arabidopsis thaliana
transcript AT5G01020.1
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|124991890|gb|EL064159.1|EL064159
EST:     AGACGAGGCTGCCGTCTTCACTCCTCAAGCTCAAG                         CCCAACAGCTCCAGAAGAAGCACTCCCGATCCGTACTCAGATCTGAGCGAT
genomic: AGACGAGGCTGCCGTCTTCACTCCTCAAGCTCAAGgtttctcttt ... cacctcgcagCCCAACAGCTCCAGAAGAAGCACTCCCGATCCGT-CTCAGATCTGAGCGAT
EST: gi|164178232|gb|ES058180.1|ES058180
EST:     TAACTGCGGTACTAGAGACGAGGCTGCCGTCTTCACTCCTCAAGCTCAAG                         CCCAACAGCTCCAGAAGAAG
genomic: -AACTGCGGTACTAGAGACGAGGCTGCCGTCTTCACTCCTCAAGCTCAAGgtttctcttt ... cacctcgcagCCCAACAGCTCCAGAAGAAG
EST: gi|125049977|gb|EL122246.1|EL122246
EST:     CAACTGCGGTACTAGAGACGAGGCTGCCGTCTTCACTCCTCAAGCTCAAG                         CCCAACAGCTCCAGAAGAAGCACTCCCGAT
genomic: CAACTGCGGTACTAGAGACGAGGCTGCCGTCTTCACTCCTCAAGCTCAAGgtttctcttt ... cacctcgcagCCCAACAGCTCCAGAAGAAGCACTCCCGAT
EST: gi|116406701|gb|EG449293.1|EG449293
EST:     CAACTGCGGTACTAGAGACGAGGCTGCCGTCTTCACTCCTCAAGCTCAAG                         CCCAACAGCTCCAGAAGAAGCACTCCCGATCCGTCTCAGATCTGAGCGATC
genomic: CAACTGCGGTACTAGAGACGAGGCTGCCGTCTTCACTCCTCAAGCTCAAGgtttctcttt ... cacctcgcagCCCAACAGCTCCAGAAGAAGCACTCCCGATCCGTCTCAGATCTGAGCGATC
EST: gi|19877960|gb|AU238791.1|AU238791
EST:     CAACTGCGGTACTAGAGACGAGGCTGCCGTCTTCACTCCTCAAGCTCAAG                         CCCAACAGCTCCAGAAGAAGCACTCCCGATCCGTCTCAGATCTGAGCGATC
genomic: CAACTGCGGTACTAGAGACGAGGCTGCCGTCTTCACTCCTCAAGCTCAAGgtttctcttt ... cacctcgcagCCCAACAGCTCCAGAAGAAGCACTCCCGATCCGTCTCAGATCTGAGCGATC
EST: gi|124761288|gb|EH851418.1|EH851418
EST:     CGGTACTAGAGACGAGGCTGCCGTCTTCACTCCTCAAGCTCAAG                         CCCAACAGCTCCAGAAGAAGCACTCCCGATCCGTCTCAGAT
genomic: CGGTACTAGAGACGAGGCTGCCGTCTTCACTCCTCAAGCTCAAGgtttctcttt ... cacctcgcagCCCAACAGCTCCAGAAGAAGCACTCCCGATCCGTCTCAGAT
EST: gi|116468710|gb|EG511302.1|EG511302
EST:     CAACTGCGGTACTAGAGACGAGGCTGCCGTCTTCACTCCTCAAGCTCAAG                         CCCAACAGCTCCAGAAGAAGCACTCCCGATCCGTCTCAGATCTGAGCGATC
genomic: CAACTGCGGTACTAGAGACGAGGCTGCCGTCTTCACTCCTCAAGCTCAAGgtttctcttt ... cacctcgcagCCCAACAGCTCCAGAAGAAGCACTCCCGATCCGTCTCAGATCTGAGCGATC
EST: gi|47830578|gb|CK120262.1|CK120262
EST:     GACGAGGCTGCCGTCTTCACTCCTCAAGCTCAAG                         CCCAACAGCTCCAGAAGAAGCACTCCCGATCCGTCTCAGATCTGAGCGATC
genomic: GACGAGGCTGCCGTCTTCACTCCTCAAGCTCAAGgtttctcttt ... cacctcgcagCCCAACAGCTCCAGAAGAAGCACTCCCGATCCGTCTCAGATCTGAGCGATC
EST: gi|86072125|gb|DR367882.1|DR367882
EST:     CAACTGCGGTACTAGAGACGAGGCTGCCGTCTTCACTCCTCAAGCTCAAG                         CCCAACAGCTCCAGAAGAAGCACTCCCGATCCGTCTCAGATCTGAGCGATC
genomic: CAACTGCGGTACTAGAGACGAGGCTGCCGTCTTCACTCCTCAAGCTCAAGgtttctcttt ... cacctcgcagCCCAACAGCTCCAGAAGAAGCACTCCCGATCCGTCTCAGATCTGAGCGATC
EST: gi|86072123|gb|DR367880.1|DR367880
EST:     CAACTGCGGTACTAGAGACGAGGCTGCCGTCTTCACTCCTCAAGCTCAAG                         CCCAACAGCTCCAGAAGAAGCACTCCCGATCCGTCTCAGATCTGAGCGATC
genomic: CAACTGCGGTACTAGAGACGAGGCTGCCGTCTTCACTCCTCAAGCTCAAGgtttctcttt ... cacctcgcagCCCAACAGCTCCAGAAGAAGCACTCCCGATCCGTCTCAGATCTGAGCGATC
EST: gi|116447998|gb|EG490590.1|EG490590
EST:     CAACTGCGGTACTAGAGACGAGGCTGCCGTCTTCACTCCTCAAGCTCAAG                         CCCAACAGCTCCAGAAGAAGCACTCCCGATCCGTCTCAGATCTGAGCGATC
genomic: CAACTGCGGTACTAGAGACGAGGCTGCCGTCTTCACTCCTCAAGCTCAAGgtttctcttt ... cacctcgcagCCCAACAGCTCCAGAAGAAGCACTCCCGATCCGTCTCAGATCTGAGCGATC
EST: gi|116447999|gb|EG490591.1|EG490591
EST:     CAACTGCGGTACTAGAGACGAGGCTGCCGTCTTCACTCCTCAAGCTCAAG                         CCCAACAGCTCCAGAAGAAGCACTCCCGATCCGTCTCAGATCTGAGCGATC
genomic: CAACTGCGGTACTAGAGACGAGGCTGCCGTCTTCACTCCTCAAGCTCAAGgtttctcttt ... cacctcgcagCCCAACAGCTCCAGAAGAAGCACTCCCGATCCGTCTCAGATCTGAGCGATC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAATTGAGGATGAGATCCTTTCCACTTCCTTCTACCTGCTGACAATGGGCAACTGCGGTACTAGAGACGAGGCTGCCGTCTTCACTCCTCAAGCTCAAGgtttctctttctctctatctctgtctctcgccgtttcttttttcctgatctctctcctctttggttcacctcgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA