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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtaaaaccaacttcatatcttcaacactgttattttcttcccacgcaaaaggaaattttgaaatgctaaatccgtttacttcttgtataatagGGTCCCGGACTATACTATGTCGACAACGAAGGAGGACGGCTCAAGGGAGACAGGTTTTCAGTCGGTTCTGGTTCACCATATGCTTACGGTGTGCTGGACA

Basic information

species Arabidopsis thaliana
transcript AT1G13060.1
intron # 5
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|125031227|gb|EL103496.1|EL103496
EST:     TTGGTACAATGATTGCTGGATGGGACGAAACT                         GGTCCCGGACTATACTATGTCGACAACGAAGGAGGACGGCTCAAGGGAGAC
genomic: TTGGTACAATGATTGCTGGATGGGACGAAACTgtcagtaaaa ... tgtataatagGGTCCCGGACTATACTATGTCGACAACGAAGGAGGACGGCTCAAGGGAGAC
EST: gi|164150905|gb|ES062076.1|ES062076
EST:     GTGGAATGGGACTTTCTGTTGGTACAATGATTGCTGGATGGGACGAAACT                         GGTCCCGGACTATACTAT
genomic: GTGGAATGGGACTTTCTGTTGGTACAATGATTGCTGGATGGGACGAAACTgtcagtaaaa ... tgtataatagGGTCCCGGACTATACTAT
EST: gi|124737413|gb|EH828815.1|EH828815
EST:     TGATTGCTGGATGGGACGAAACT                         GGTCCCGGACTATACTATGTCGACAACGAAGGAGGACGGCTCAAGGGAGAC
genomic: TGATTGCTGGATGGGACGAAACTgtcagtaaaa ... tgtataatagGGTCCCGGACTATACTATGTCGACAACGAAGGAGGACGGCTCAAGGGAGAC
EST: gi|86079424|gb|DR375181.1|DR375181
EST:     GTGGAAT-GGACTTTCTGTTGGTACAATGATTGCTGGATGGGACGAAACT                         GGTCCCGGACTATACTATGTCGACAACGAAGGAGGACGGCTCAAGGGAGAC
genomic: GTGGAATGGGACTTTCTGTTGGTACAATGATTGCTGGATGGGACGAAACTgtcagtaaaa ... tgtataatagGGTCCCGGACTATACTATGTCGACAACGAAGGAGGACGGCTCAAGGGAGAC
EST: gi|116463327|gb|EG505919.1|EG505919
EST:     GTGGAATGGGACTTTCTGTTGGTACAATGATTGCTGGATGGGACGAAACT                         GGTCCCGGACTATACTATGTCGACAACGAAGGAGGACGGCTCAAGGGAGAC
genomic: GTGGAATGGGACTTTCTGTTGGTACAATGATTGCTGGATGGGACGAAACTgtcagtaaaa ... tgtataatagGGTCCCGGACTATACTATGTCGACAACGAAGGAGGACGGCTCAAGGGAGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcccacgcaaaaggaaattttgaaatgctaaatccgtttacttcttgtataatagGGTCCCGGACTATACTATGTCGACAACGAAGGAGGACGGCTCAAGGGAGACAGGTTTTCAGTCGGTTCTGGTTCACCATATGCTTACGGTGTGCTGGACA
                         tgctaaa  putative branch site (score: 2)
 tccgtttacttctt  CT-rich tract
 aaattttgaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcagtaaaaccaacttcatatcttcaacactgttattttcttcccacgcaaaaggaaattttgaaatgctaaatccgtttacttcttgtataatagGGTCCCGGACTATACTATGTCGACAACGAAGGAGGACGGCTCAAGGGAGACAGGTTTTCAGTCGGTTCTGGTTCACCATATGCTTACGGTGTGCTGGACA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA