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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATTCTTCGGCTTCCTTTCGCCCAAACTCTTCCCTCGAATCTTTCCTTCTCGTCTTAAAGCTACGAAACCCTAGATTTCGGATTTCTTCGCTATCCAAAGgtctgacctttaatccttttcctgagttttttcgattagatcttatgagtttcatcaccttaagaggataagtctcgttgttttggaagatgaaatctaa...

Basic information

species Arabidopsis thaliana
transcript AT3G13445.1
intron # 1
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|164095445|gb|ES104215.1|ES104215
EST:     CCCTAGATTTCGGATTTCTTCGCTATCCAAAG                         AAGAATGACTGATCAAGGATTGGAAGGGAGTAATCCAGTTGATCTTAGCAA
genomic: CCCTAGATTTCGGATTTCTTCGCTATCCAAAGgtctgacctt ... gtaactatagAAGAATGACTGATCAAGGATTGGAAGGGAGTAATCCAGTTGATCTTAGCAA
EST: gi|164117637|gb|ES001032.1|ES001032
EST:     GTCTTAAAGCTACGTAAACCCTAGACTTCGGATTTCTTCGCTATCCAAAG                         AAGAATGACTGATCAAGGATTGGAAGGGAGTAATCCA
genomic: GTCTTAAAGCTACG-AAACCCTAGATTTCGGATTTCTTCGCTATCCAAAGgtctgacctt ... gtaactatagAAGAATGACTGATCAAGGATTGGAAGGGAGTAATCCA
EST: gi|164058140|gb|ES004265.1|ES004265
EST:     CGTCTTAAAGCTACGAAACCCTAGA-CTCGGATTTCTTCGCTATCCAAAG                         AAGAATGACTGATCAAGGATTGGAAGGGAGTAATCCA
genomic: CGTCTTAAAGCTACGAAACCCTAGATTTCGGATTTCTTCGCTATCCAAAGgtctgacctt ... gtaactatagAAGAATGACTGATCAAGGATTGGAAGGGAGTAATCCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AATTCTTCGGCTTCCTTTCGCCCAAACTCTTCCCTCGAATCTTTCCTTCTCGTCTTAAAGCTACGAAACCCTAGATTTCGGATTTCTTCGCTATCCAAAGgtctgacctttaatccttttcctgagttttttcgattagatcttatgagtttcatcaccttaagaggataagtctcgttgttttggaagatgaaatctaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccttttcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aggataag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gatgaaa