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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATGATTCTTTGGTCAATGGTACTGCGCCAGTTGAGAACGGAAGTGCAACAGATAATGTGGCTGTGACTGCTCCAGCAGCGGAGCATGGAGACAATACTGgtaatttcttcttctttttgaaagcttgtatgagcacatattgattctaagaggcgtcactagaacctgatcttaacttcgatgatgataatcctttacttattccttctctcttgttacag

Basic information

species Arabidopsis thaliana
transcript AT1G04080.3
intron # 2
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|116437308|gb|EG479900.1|EG479900
EST:     AGATAATGTGGCTGTGACTGCTCCAGCAGCGGAGCATGGAGACAATACTG                         GCTCTACACTCTCAACGGA
genomic: AGATAATGTGGCTGTGACTGCTCCAGCAGCGGAGCATGGAGACAATACTGgtaatttctt ... cttgttacagGCTCTACACTCTCAACGGA
EST: gi|116437311|gb|EG479903.1|EG479903
EST:     AGATAATGTGGCTGTGACTGCTCCAGCAGCGGAGCAGGGAGACAATACTG                         GCTCTACACTCTCAACGGAAGAGGAGCGCTTGTGGAATATTGTAAGGGCAA
genomic: AGATAATGTGGCTGTGACTGCTCCAGCAGCGGAGCATGGAGACAATACTGgtaatttctt ... cttgttacagGCTCTACACTCTCAACGGAAGAGGAGCGCTTGTGGAATATTGTAAGGGCAA
EST: gi|116437310|gb|EG479902.1|EG479902
EST:     AGATAATGTGGCTGTGACTGCTCCAGCAGCGGAGCATGGAGACAATACTG                         GCTCTACACTCTCAACGGAAGAGGGAGCGCTTGTGGAATATTGTAAGGGCA
genomic: AGATAATGTGGCTGTGACTGCTCCAGCAGCGGAGCATGGAGACAATACTGgtaatttctt ... cttgttacagGCTCTACACTCTCAACGGAAGAGG-AGCGCTTGTGGAATATTGTAAGGGCA
EST: gi|116437309|gb|EG479901.1|EG479901
EST:     AGATAATGTGGCTGTGACTGCTCCAGCAGCGGAGCATGGAGACAATACTG                         GCTCTACACTCTCAACGGAAGAGGAGCGCTTGTGGAATATTGTAAGGGCAA
genomic: AGATAATGTGGCTGTGACTGCTCCAGCAGCGGAGCATGGAGACAATACTGgtaatttctt ... cttgttacagGCTCTACACTCTCAACGGAAGAGGAGCGCTTGTGGAATATTGTAAGGGCAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AATGATTCTTTGGTCAATGGTACTGCGCCAGTTGAGAACGGAAGTGCAACAGATAATGTGGCTGTGACTGCTCCAGCAGCGGAGCATGGAGACAATACTGgtaatttcttcttctttttgaaagcttgtatgagcacatattgattctaagaggcgtcactagaacctgatcttaacttcgatgatgataatcctttacttattccttctctcttgttacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA