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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAAATGGCAAGACTGAAGCAAGCTAAGGAAGAGGCAGAGAAAGAGATTGCCGAATACAAAGCTCAAACAGAGCAAGACTTCCAGAGGAAACTTGAGGAGgtaaatgattttttaaaaagagaaaattgttcttagacaacctaaaatgtagtgtcctcactctaattatcatattgttgaaaacag

Basic information

species Arabidopsis thaliana
transcript AT3G01390.1
intron # 3
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|164010298|gb|ES047164.1|ES047164
EST:     CGAATACAAAGCTCAAACAGAGCAAGACTTCCAGAAGGAAACTTGAGGAG                         ACAAGCGGAGACTCTGGT
genomic: CGAATACAAAGCTCAAACAGAGCAAGACTTCCAGA-GGAAACTTGAGGAGgtaaatgatt ... ttgaaaacagACAAGCGGAGACTCTGGT
EST: gi|164015733|gb|ES056694.1|ES056694
EST:     GACTTCCAGAGGAAACTTGAGGAG                         ACAAGCGGAGACTCTGGTGCGAATGTGAAGAGGCTGGAGCAAGAGACTGAT
genomic: GACTTCCAGAGGAAACTTGAGGAGgtaaatgatt ... ttgaaaacagACAAGCGGAGACTCTGGTGCGAATGTGAAGAGGCTGGAGCAAGAGACTGAT
EST: gi|164236084|gb|ES158093.1|ES158093
EST:     GAAACTTGAGGAG                         ACAAGCGGAGACTCTGGTGCGAATGTGAAGAGGCTGGAGCAAGAGACTGAT
genomic: GAAACTTGAGGAGgtaaatgatt ... ttgaaaacagACAAGCGGAGACTCTGGTGCGAATGTGAAGAGGCTGGAGCAAGAGACTGAT
EST: gi|164048792|gb|ES168144.1|ES168144
EST:     TCCAGAGGAAACTTGAGGAG                         ACAAGCGGAGACTCTGGTGTGAATGTGAAGAGGCTGGAGCAAGAGACTGAT
genomic: TCCAGAGGAAACTTGAGGAGgtaaatgatt ... ttgaaaacagACAAGCGGAGACTCTGGTGCGAATGTGAAGAGGCTGGAGCAAGAGACTGAT
EST: gi|125215527|gb|EL229611.1|EL229611
EST:     AGGAAACTTGAGGAG                         ACAAGCGGAGACTCTGGTGCGAATGTGAAGAGGCTGGAGCAAGAGACTGAT
genomic: AGGAAACTTGAGGAGgtaaatgatt ... ttgaaaacagACAAGCGGAGACTCTGGTGCGAATGTGAAGAGGCTGGAGCAAGAGACTGAT
EST: gi|124949635|gb|EL025200.1|EL025200
EST:     CTCAAACAGAGCAAGACTTCCAGAGGAAACTTGAGGAG                         ACAAGCGGAGACTCTGGTGCGAATGTGAAGAGGCTGGAGCAAGAGACTGAT
genomic: CTCAAACAGAGCAAGACTTCCAGAGGAAACTTGAGGAGgtaaatgatt ... ttgaaaacagACAAGCGGAGACTCTGGTGCGAATGTGAAGAGGCTGGAGCAAGAGACTGAT
EST: gi|125301578|gb|EL315663.1|EL315663
EST:     CCGAATACAAAGCTCAAACAGAGCAAGACTTCCAGAGGAAACTTGAGGAG                         ACAAGCGGAGACTCTGGT
genomic: CCGAATACAAAGCTCAAACAGAGCAAGACTTCCAGAGGAAACTTGAGGAGgtaaatgatt ... ttgaaaacagACAAGCGGAGACTCTGGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAAAATGGCAAGACTGAAGCAAGCTAAGGAAGAGGCAGAGAAAGAGATTGCCGAATACAAAGCTCAAACAGAGCAAGACTTCCAGAGGAAACTTGAGGAGgtaaatgattttttaaaaagagaaaattgttcttagacaacctaaaatgtagtgtcctcactctaattatcatattgttgaaaacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG