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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctctttaagctcctaatcgtttcttctctcttaaataaatcaactttatctgatcttagatgcttttgtgaattgatgataaaagtagCCAAGCTCCTGTTGCTGTGCAAGAAAATGGATTGGTGAAGACGAAGAAAGAGTGTTATGGAGTGTTCTGCCTCACCTATGATCTTAAAGCT

Basic information

species Arabidopsis thaliana
transcript AT5G58330.3
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|116468461|gb|EG511053.1|EG511053
EST:     ACACAACAACTCCCAACTCCAAAATCTCTTGCTCCGTTTCTCAAAA-TAG                         CCAAGCTCCTGTTGCTGTGCAAGAAAATGGATTGGTGAAGACGAAGAAAGA
genomic: ACACAACAACTCCCAACTCCAAAATCTCTTGCTCCGTTTCTCAAAAGTAAgtctctttaa ... ataaaagtagCCAAGCTCCTGTTGCTGTGCAAGAAAATGGATTGGTGAAGACGAAGAAAGA
EST: gi|124764044|gb|EH854174.1|EH854174
EST:     CACAACAACTCCCAACTCCAAAATCTCTTGCTCCGTTTCTCAAAA-TAG                         CCAAGCTCCTGTTGCTGTGCAAGAAAATGGATTGGTGAAGACGAAGAAAGA
genomic: CACAACAACTCCCAACTCCAAAATCTCTTGCTCCGTTTCTCAAAAGTAAgtctctttaa ... ataaaagtagCCAAGCTCCTGTTGCTGTGCAAGAAAATGGATTGGTGAAGACGAAGAAAGA
EST: gi|125317465|gb|EL331550.1|EL331550
EST:     ACACAACAACTCCCAACTCCAAAATCTCTTGCTCCGTTTCTCAAAA-TAG                         CCAAGCTCCTGTTGCTGTGCAAGAA
genomic: ACACAACAACTCCCAACTCCAAAATCTCTTGCTCCGTTTCTCAAAAGTAAgtctctttaa ... ataaaagtagCCAAGCTCCTGTTGCTGTGCAAGAA
EST: gi|116468405|gb|EG510997.1|EG510997
EST:     ACACAACAACTCCCAACTCCAAAATCTCTTGCTCCGTTTCTCAAAA-TAG                         CCAAGCTCCTGTTGCTGTGCAAGAAAATGGATTGGTGAAGACGAAGAAAGA
genomic: ACACAACAACTCCCAACTCCAAAATCTCTTGCTCCGTTTCTCAAAAGTAAgtctctttaa ... ataaaagtagCCAAGCTCCTGTTGCTGTGCAAGAAAATGGATTGGTGAAGACGAAGAAAGA
EST: gi|116454058|gb|EG496650.1|EG496650
EST:     ACACAACAACTCCCAACTCCAAAATCTCTTGCTCCGTTTCTC--AA--AA                         CCAAGCTCCTGTTGCTGTGCAAGAAAATGGATTGGTGAAGACGAAGAAAGA
genomic: ACACAACAACTCCCAACTCCAAAATCTCTTGCTCCGTTTCTCAAAAGTAAgtctctttaa ... ataaaagtagCCAAGCTCCTGTTGCTGTGCAAGAAAATGGATTGGTGAAGACGAAGAAAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aataaatcaactttatctgatcttagatgcttttgtgaattgatgataaaagtagCCAAGCTCCTGTTGCTGTGCAAGAAAATGGATTGGTGAAGACGAAGAAAGAGTGTTATGGAGTGTTCTGCCTCACCTATGATCTTAAAGCT
                                     aattgat  putative branch site (score: 4)
                                     aattgatgataaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtctctttaagctcctaatcgtttcttctctcttaaataaatcaactttatctgatcttagatgcttttgtgaattgatgataaaagtagCCAAGCTCCTGTTGCTGTGCAAGAAAATGGATTGGTGAAGACGAAGAAAGAGTGTTATGGAGTGTTCTGCCTCACCTATGATCTTAAAGCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA