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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggtttcaatctcttataagaaacaaaaatattttggtttaatggttatttgataatcatttgatatatttgatagGGCTTTGCTAGGGAGTGTGAGCGAGTATTGCGCCAAACGAGTCAAGTGTCCTGTGGTTATCGTCAAGAAGCAAGCTCAAGATAATTAAGCTCATATGATT

Basic information

species Arabidopsis thaliana
transcript AT3G62550.1
intron # 3
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|124814076|gb|EH898942.1|EH898942
EST:     AGAGTTGATATGTTAGTAATGGGCACTCATGGCTATGGCTTCTTCAAAAG                         GGCTTTAGCTAGGGAGTGTGAGCGAGTATTG
genomic: AGAGTTGATATGTTAGTAATGGGCACTCATGACTATGGCTTCTTCAAAAGgtaaggtttc ... tatttgatagGGCTTT-GCTAGGGAGTGTGAGCGAGTATTG
EST: gi|86075818|gb|DR371575.1|DR371575
EST:     AGAGTTGATATGTTAGTAATGGGCACTCATGACTATGGCTTCTTCAAAAG                         GGCTTTGCTAGGGAGTGTGAGCGAGTATTGCGCCAAACGAGTCAAGTGTCC
genomic: AGAGTTGATATGTTAGTAATGGGCACTCATGACTATGGCTTCTTCAAAAGgtaaggtttc ... tatttgatagGGCTTTGCTAGGGAGTGTGAGCGAGTATTGCGCCAAACGAGTCAAGTGTCC
EST: gi|47831361|gb|CK121045.1|CK121045
EST:     AGAGTTGATATGTTAGTAATGGGCACTCATGACTATGGCTTCTTCAAAAG                         GGCTTTGCTAGGGAGTGTGAGCGAGTATTGCGCCAAACGAGTCAAGTGTCC
genomic: AGAGTTGATATGTTAGTAATGGGCACTCATGACTATGGCTTCTTCAAAAGgtaaggtttc ... tatttgatagGGCTTTGCTAGGGAGTGTGAGCGAGTATTGCGCCAAACGAGTCAAGTGTCC
EST: gi|124948521|gb|EL024260.1|EL024260
EST:     GAGTTGATATGTTAGTAATGGGCACTTCATGACTATGGCTTCTTCAAAAG                         GGCTTTGCTAGGGAGTGTGAGCGAGTATTGCGCCAAACGAGTCAAGTG
genomic: GAGTTGATATGTTAGTAATGGGCAC-TCATGACTATGGCTTCTTCAAAAGgtaaggtttc ... tatttgatagGGCTTTGCTAGGGAGTGTGAGCGAGTATTGCGCCAAACGAGTCAAGTG
EST: gi|124816632|gb|EH901498.1|EH901498
EST:     GAGTTGATATGTTAGTAATGGGCACTTCATGACTATGGCTTCTTCAAAAG                         GGCTTTGCTAGGGAGTGTGAGCGAGTATTGCGCCGAACGAGTCAAGTG
genomic: GAGTTGATATGTTAGTAATGGGCAC-TCATGACTATGGCTTCTTCAAAAGgtaaggtttc ... tatttgatagGGCTTTGCTAGGGAGTGTGAGCGAGTATTGCGCCAAACGAGTCAAGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacaaaaatattttggtttaatggttatttgataatcatttgatatatttgatagGGCTTTGCTAGGGAGTGTGAGCGAGTATTGCGCCAAACGAGTCAAGTGTCCTGTGGTTATCGTCAAGAAGCAAGCTCAAGATAATTAAGCTCATATGATT
                tttaatggttatttga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaggtttcaatctcttataagaaacaaaaatattttggtttaatggttatttgataatcatttgatatatttgatagGGCTTTGCTAGGGAGTGTGAGCGAGTATTGCGCCAAACGAGTCAAGTGTCCTGTGGTTATCGTCAAGAAGCAAGCTCAAGATAATTAAGCTCATATGATT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA