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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAAAGGCAAGTCCTGAAGCTAAAACAGCTGCTGGGGTGTAGAGAAGGTTGCAAAAAAGATTGTATTTACGGCATTGGAGCCCCCTGATAAGgtattcattcaccagtttccgaagtattggtcctaattcctaaaattagaaaagacatgcaatgcattagctcataccatgcttaagtaagatgtcaattagggccaaagctttgtttctgcccaccccggaaaaatagggtagactagaattctcctccataacggtgtttgatatttgacttgcatgtttgcag

Basic information

species Arabidopsis thaliana
transcript AT3G54660.1
intron # 10
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|125235116|gb|EL249201.1|EL249201
EST:     AGGTTGCAAAAAAGATTGTATTTACGGCATTGGAGCCCCCTGATAAG                         GAGAACATTGTGTCTGTGAAGAAGAAGCTTTTCTTTTGGCAG
genomic: AGGTTGCAAAAAAGATTGTATTTACGGCATTGGAGCCCCCTGATAAGgtattcattc ... atgtttgcagGAGAACATTGTGTCTGTGAAGAAGAAGCTTTTCTTTTGGCAG
EST: gi|116472768|gb|EG515360.1|EG515360
EST:     AGAAGGTTGCAAAAAAGATTGTATTTACGGCATTGGAGCCCCCTGATAAG                         GAGAACATTGTGTCTGTGAAGAAGAAGCTTTTCTTTTGGCAGAGAATATTT
genomic: AGAAGGTTGCAAAAAAGATTGTATTTACGGCATTGGAGCCCCCTGATAAGgtattcattc ... atgtttgcagGAGAACATTGTGTCTGTGAAGAAGAAGCTTTTCTTTTGGCAGAGAATATTT
EST: gi|86061670|gb|DR357427.1|DR357427
EST:     AGAAGGTTGCAAAAMAGATTGTATTTACGGCATTGGAGCTCCCTGATAAG                         -AGAACATTGTGTCTGTGAAGAAGAAGCTTTTCTTTTGGCAGAGAATATTT
genomic: AGAAGGTTGCAAAAAAGATTGTATTTACGGCATTGGAGCCCCCTGATAAGgtattcattc ... atgtttgcagGAGAACATTGTGTCTGTGAAGAAGAAGCTTTTCTTTTGGCAGAGAATATTT
EST: gi|124762219|gb|EH852349.1|EH852349
EST:     TGTATTTACGGCATTGGAGCCCCCTGATAAG                         GAGAACATTGTGTCTGTGAAGAAGAAGCTTTTCTTTTGGCAGAGAATATTT
genomic: TGTATTTACGGCATTGGAGCCCCCTGATAAGgtattcattc ... atgtttgcagGAGAACATTGTGTCTGTGAAGAAGAAGCTTTTCTTTTGGCAGAGAATATTT
EST: gi|86061672|gb|DR357429.1|DR357429
EST:     AGAAGGTTGCAAAAAAGATTGTATTTACGGCATTGGAGCTCCCTGATAAG                         GAGAACATTGTGTCTGTGAAGAAGAAGCTTTTCTTTTGGCAGAGAATATTT
genomic: AGAAGGTTGCAAAAAAGATTGTATTTACGGCATTGGAGCCCCCTGATAAGgtattcattc ... atgtttgcagGAGAACATTGTGTCTGTGAAGAAGAAGCTTTTCTTTTGGCAGAGAATATTT
EST: gi|86061674|gb|DR357431.1|DR357431
EST:     AGAAGGTTGCAAAAWAGATTGTATTTACGGCATTGGAGCTCCCTGATAAG                         GAGAACATTGTGTCTGTGAAGAAGAAGCTTTTCTTTTGGCAGAGAATATTT
genomic: AGAAGGTTGCAAAAAAGATTGTATTTACGGCATTGGAGCCCCCTGATAAGgtattcattc ... atgtttgcagGAGAACATTGTGTCTGTGAAGAAGAAGCTTTTCTTTTGGCAGAGAATATTT
EST: gi|86061671|gb|DR357428.1|DR357428
EST:     AGAAGGTTGCAAAAAAGATTGTATTTACGGCATTGGAGCTCCCTGATAAG                         GAGAACATTGTGTCTGTGAAGAAGAAGCTTTTCTTTTGGCAGAGAATATTT
genomic: AGAAGGTTGCAAAAAAGATTGTATTTACGGCATTGGAGCCCCCTGATAAGgtattcattc ... atgtttgcagGAGAACATTGTGTCTGTGAAGAAGAAGCTTTTCTTTTGGCAGAGAATATTT
EST: gi|86078733|gb|DR374490.1|DR374490
EST:     AGAAGGTTGCAAAAAAGATTGTATTTACGGCATTGGAGCTCCCTGATAAG                         GAGAACATTGTGTCTGTGAAGAAGAAGCTTTTCTTTTGGCAGAGAATATTT
genomic: AGAAGGTTGCAAAAAAGATTGTATTTACGGCATTGGAGCCCCCTGATAAGgtattcattc ... atgtttgcagGAGAACATTGTGTCTGTGAAGAAGAAGCTTTTCTTTTGGCAGAGAATATTT
EST: gi|86086942|gb|DR382701.1|DR382701
EST:     AGAAGGTTGCAAAAAAGATTGTATTTACGGCATTGGAGCTCCCTGATAAG                         GAGAACATTGTGTCTGTGAAGAAGAAGCTTTTYTTTTGGCAGAGAATATTT
genomic: AGAAGGTTGCAAAAAAGATTGTATTTACGGCATTGGAGCCCCCTGATAAGgtattcattc ... atgtttgcagGAGAACATTGTGTCTGTGAAGAAGAAGCTTTTCTTTTGGCAGAGAATATTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGAAAGGCAAGTCCTGAAGCTAAAACAGCTGCTGGGGTGTAGAGAAGGTTGCAAAAAAGATTGTATTTACGGCATTGGAGCCCCCTGATAAGgtattcattcaccagtttccgaagtattggtcctaattcctaaaattagaaaagacatgcaatgcattagctcataccatgcttaagtaagatgtcaattagggccaaagctttgtttctgcccaccccggaaaaatagggtagactagaattctcctccataacggtgtttgatatttgacttgcatgtttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG