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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagagttttggtgatcacataagttctcttatactttgtagtgatcagtggatttgcaggtttatgttctgtttttcaaggaatctgagtatttgttttcattgtacttgtgtttggctattgtagAATGTGAGGCAGGCAAGTAGAACATTGCAGCAAGGGAAAAGTATAATTGTGGCAGGTTTTGCTGAATCGAAGAAGGATCATGGTAATGAAATGATTGAAA

Basic information

species Arabidopsis thaliana
transcript AT3G01480.2
intron # 2
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|125194732|gb|EL209686.1|EL209686
EST:     CTGATAGCCTCAAGATTGCTGGCGTTAAGGCTCTAGATTCTGTTGAACGG                         AATGTGAGGCAGGCAAGTAGAACATTGCAGCAAAGGGAAAAGT
genomic: CTGATAGCCTCAAGATTGCTGGCGTTAAGGCTCTAGATTCTGTTGAACGGgtaaagagtt ... gctattgtagAATGTGAGGCAGGCAAGTAGAACATTGCAGCAA-GGGAAAAGT
EST: gi|124803868|gb|EH892003.1|EH892003
EST:     CTGATAGCCTCAAGATTGCTGGCGTTAAGGCTCTAGATTCTGTTGAACGG                         AATGTGAGGCAGGCAAGTAGAACATTGCAGCAAGGGAAAAGTATAA
genomic: CTGATAGCCTCAAGATTGCTGGCGTTAAGGCTCTAGATTCTGTTGAACGGgtaaagagtt ... gctattgtagAATGTGAGGCAGGCAAGTAGAACATTGCAGCAAGGGAAAAGTATAA
EST: gi|124937782|gb|EL014489.1|EL014489
EST:     ATTGCTGGCGTTAAGGCTCTAGATTCTGTTGAACGG                         AATGTGAGGCAGGCAAGTAGAACATTGCAGCAAGGGAAAAGTATAATTGTG
genomic: ATTGCTGGCGTTAAGGCTCTAGATTCTGTTGAACGGgtaaagagtt ... gctattgtagAATGTGAGGCAGGCAAGTAGAACATTGCAGCAAGGGAAAAGTATAATTGTG
EST: gi|124800448|gb|EH890113.1|EH890113
EST:     CTCTAGATTCTGTTGAACGG                         AATGTGAGGCAGGCAAGTAGAACATTGCAGCAAGGGAAAAGTATAATTGTG
genomic: CTCTAGATTCTGTTGAACGGgtaaagagtt ... gctattgtagAATGTGAGGCAGGCAAGTAGAACATTGCAGCAAGGGAAAAGTATAATTGTG
EST: gi|125236853|gb|EL250938.1|EL250938
EST:     TGATAGTCCTCAAGATTGCTGGCGTTAAGGCTCTAGATTCTGTTGAACGG                         AATGTGAGGCAGGCAAGTAGAACATTG
genomic: TGATAG-CCTCAAGATTGCTGGCGTTAAGGCTCTAGATTCTGTTGAACGGgtaaagagtt ... gctattgtagAATGTGAGGCAGGCAAGTAGAACATTG
EST: gi|124710661|gb|EH802063.1|EH802063
EST:     CTGATAGCCTCAAGATTGCTGGCGTTAAGGCTCTAGATTCTGTTGAACGG                         AATGTGAGGCAGGCAAGTAGAACATTGCAGCAAGGGAAAAGT
genomic: CTGATAGCCTCAAGATTGCTGGCGTTAAGGCTCTAGATTCTGTTGAACGGgtaaagagtt ... gctattgtagAATGTGAGGCAGGCAAGTAGAACATTGCAGCAAGGGAAAAGT
EST: gi|124866379|gb|EH950816.1|EH950816
EST:     ATTGCTGGCGTTAAGGCTCTAGATTCTGTTGAACGG                         AATGTGAGGCAGGCAAGTAGAACAATTGCAGCAAGGGAAAAGTATAATTGT
genomic: ATTGCTGGCGTTAAGGCTCTAGATTCTGTTGAACGGgtaaagagtt ... gctattgtagAATGTGAGGCAGGCAAGTAGAACA-TTGCAGCAAGGGAAAAGTATAATTGT
EST: gi|125213484|gb|EL228316.1|EL228316
EST:     TAGATTCTGTTGAACGG                         AATGTGAGGCAGGCAAGTAGAACATTGCAGCAAGGGAAAAGTATAATTGTG
genomic: TAGATTCTGTTGAACGGgtaaagagtt ... gctattgtagAATGTGAGGCAGGCAAGTAGAACATTGCAGCAAGGGAAAAGTATAATTGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttcaaggaatctgagtatttgttttcattgtacttgtgtttggctattgtagAATGTGAGGCAGGCAAGTAGAACATTGCAGCAAGGGAAAAGTATAATTGTGGCAGGTTTTGCTGAATCGAAGAAGGATCATGGTAATGAAATGATTGAAA
                  tatttgttttcatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaagagttttggtgatcacataagttctcttatactttgtagtgatcagtggatttgcaggtttatgttctgtttttcaaggaatctgagtatttgttttcattgtacttgtgtttggctattgtagAATGTGAGGCAGGCAAGTAGAACATTGCAGCAAGGGAAAAGTATAATTGTGGCAGGTTTTGCTGAATCGAAGAAGGATCATGGTAATGAAATGATTGAAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG