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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAGATTTGAATGTTACGTGGGATGTTGATTTATACGGCGAGTTACTTAAAATCGGTGGTGGTAAAGAAAGgtatacaatcaaaattgcatttactataccaaatcttgagttagtctctcgtttgaatgaaattggagtggctttgttttggtag

Basic information

species Arabidopsis thaliana
transcript AT3G48420.1
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|124967262|gb|EL041307.1|EL041307
EST:     TACTTAAAATCGGTGGTGGTAAAGAAAG                         GATGACTGCGTATTTTAACAAGGTTGGTTGGCCAGAGAAAGCTCCTAAAGA
genomic: TACTTAAAATCGGTGGTGGTAAAGAAAGgtatacaatc ... gttttggtagGATGACTGCGTATTTTAACAAGGTTGGTTGGCCAGAGAAAGCTCCTAAAGA
EST: gi|124938407|gb|EL015037.1|EL015037
EST:     TTGATTTATACGGCGAGTTACTTAAAATCGGTGGTGGTAAAGAAAG                         GATGACTGCGTATTTTAACAAGGTTGGTTGGCCAGAGAAAGCTCCTAAAGA
genomic: TTGATTTATACGGCGAGTTACTTAAAATCGGTGGTGGTAAAGAAAGgtatacaatc ... gttttggtagGATGACTGCGTATTTTAACAAGGTTGGTTGGCCAGAGAAAGCTCCTAAAGA
EST: gi|125324256|gb|EL338336.1|EL338336
EST:     GTGGTAAAGAAAG                         GATGACTGCGTATTTTAACAAGGTTGGTTGGCCAGAGAAAGCTCCTAAAGA
genomic: GTGGTAAAGAAAGgtatacaatc ... gttttggtagGATGACTGCGTATTTTAACAAGGTTGGTTGGCCAGAGAAAGCTCCTAAAGA
EST: gi|124723557|gb|EH814959.1|EH814959
EST:     TAAAATCGGTGGTGGTAAAGAAAG                         GATGACTGCGTATTTTAACAAGGTTGGTTGGCCAGAGAAAGCTCCTAAAGA
genomic: TAAAATCGGTGGTGGTAAAGAAAGgtatacaatc ... gttttggtagGATGACTGCGTATTTTAACAAGGTTGGTTGGCCAGAGAAAGCTCCTAAAGA
EST: gi|125269915|gb|EL284000.1|EL284000
EST:     CTTAAAATCGGTGGTGGTAAAGAAAG                         GATGACTGCGTATTTTAACAAGGTTGGTTGGCCAGAGAAAGCTCCTAAAGA
genomic: CTTAAAATCGGTGGTGGTAAAGAAAGgtatacaatc ... gttttggtagGATGACTGCGTATTTTAACAAGGTTGGTTGGCCAGAGAAAGCTCCTAAAGA
EST: gi|125209784|gb|EL224738.1|EL224738
EST:     GATGTTGATTTATACGGCGAGTTACTTAAAATCGGTGGTGGTAAAGAAAG                         GATGACTGCGTTATTTTA
genomic: GATGTTGATTTATACGGCGAGTTACTTAAAATCGGTGGTGGTAAAGAAAGgtatacaatc ... gttttggtagGATGACTGCGT-ATTTTA
EST: gi|47832151|gb|CK121835.1|CK121835
EST:     GATGTTGATTTATACGGCGAGTTACTTAAAATCGGTGGTGGTAAAGAAAG                         GATGACTGCGTATTTTAACAAGGTTGGTTGGCCAGAGAAAGCTCCTAAAGA
genomic: GATGTTGATTTATACGGCGAGTTACTTAAAATCGGTGGTGGTAAAGAAAGgtatacaatc ... gttttggtagGATGACTGCGTATTTTAACAAGGTTGGTTGGCCAGAGAAAGCTCCTAAAGA
EST: gi|124721903|gb|EH813305.1|EH813305
EST:     AAAATCGGTGGTGGTAAAGAAAG                         GATGACTGCGTATTTTAACAAGGTTGGTTGGCCAGAGA
genomic: AAAATCGGTGGTGGTAAAGAAAGgtatacaatc ... gttttggtagGATGACTGCGTATTTTAACAAGGTTGGTTGGCCAGAGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGAGATTTGAATGTTACGTGGGATGTTGATTTATACGGCGAGTTACTTAAAATCGGTGGTGGTAAAGAAAGgtatacaatcaaaattgcatttactataccaaatcttgagttagtctctcgtttgaatgaaattggagtggctttgttttggtag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA