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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggaactatttttcattctatgtaagctctgcttcatctcttgaaggcaaattttaactctcttttgttattttcagCTTAACAACTTGGAAGAGAGCTTTGACGTGATTCGTTCTCGACCTAAGCCACTTGCGGCATACTTGTTTACACATAACAAGAAGTTGAAAGAGAGATTCG

Basic information

species Arabidopsis thaliana
transcript AT1G44170.3
intron # 8
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|86074378|gb|DR370135.1|DR370135
EST:     TTTGGCCCTCTCCTTCCAATCCTCACG                         CTTAACAACTTGGAAGAGAGCTTTGACGTGATTCGTTCTCGACCTAAGCCA
genomic: TTTGGCCCTCTCCTTCCAATCCTCACGgtaggaacta ... ttattttcagCTTAACAACTTGGAAGAGAGCTTTGACGTGATTCGTTCTCGACCTAAGCCA
EST: gi|116465911|gb|EG508503.1|EG508503
EST:     CTCTGATCATGAGTGAAGAAATATTTGGCCCTCTCCTTCCAATCCTCACG                         CTTAACAACTTGGAAGAGAGCTTTGACGTGATTCGTTCTCGACCTAAGCCA
genomic: CTCTGATCATGAGTGAAGAAATATTTGGCCCTCTCCTTCCAATCCTCACGgtaggaacta ... ttattttcagCTTAACAACTTGGAAGAGAGCTTTGACGTGATTCGTTCTCGACCTAAGCCA
EST: gi|86076863|gb|DR372620.1|DR372620
EST:     CTCTGATCATGAGTGAAGAAATATTTGGCCYTCTCCTTCCAATCCTCACG                         CTTAACAACTTGGAAGAGAGCTTTGACGTGATTCGTTCTCGACCTAAGCCA
genomic: CTCTGATCATGAGTGAAGAAATATTTGGCCCTCTCCTTCCAATCCTCACGgtaggaacta ... ttattttcagCTTAACAACTTGGAAGAGAGCTTTGACGTGATTCGTTCTCGACCTAAGCCA
EST: gi|86029395|gb|DR325148.1|DR325148
EST:     CTCTGATCATGAGTGAAGAAATATTTGGCCCTCTCCTTCCAATCCTCACG                         CTTAACAACTTGGAAGAGAGCTTTGACGTGATTCGTTCTCGACCTAAGCCA
genomic: CTCTGATCATGAGTGAAGAAATATTTGGCCCTCTCCTTCCAATCCTCACGgtaggaacta ... ttattttcagCTTAACAACTTGGAAGAGAGCTTTGACGTGATTCGTTCTCGACCTAAGCCA
EST: gi|116465913|gb|EG508505.1|EG508505
EST:     CTCTGATCATGAGTGAAGAAATATTTGGCCCTCTCCTTCCAATCCTCACG                         CTTAACAACTTGGAAGAGAGCTTTGACGTGATTCGTTCTCGACCTAAGCCA
genomic: CTCTGATCATGAGTGAAGAAATATTTGGCCCTCTCCTTCCAATCCTCACGgtaggaacta ... ttattttcagCTTAACAACTTGGAAGAGAGCTTTGACGTGATTCGTTCTCGACCTAAGCCA
EST: gi|116465916|gb|EG508508.1|EG508508
EST:     CTCTGATCATGAGTGAAGAAATATTTGGCCCTCTCCTTCCAATCCTCACG                         CTTAACAACTTGGAAGAGAGCTTTGACGTGATTCGTTCTCGACCTAAGCCA
genomic: CTCTGATCATGAGTGAAGAAATATTTGGCCCTCTCCTTCCAATCCTCACGgtaggaacta ... ttattttcagCTTAACAACTTGGAAGAGAGCTTTGACGTGATTCGTTCTCGACCTAAGCCA
EST: gi|116465923|gb|EG508515.1|EG508515
EST:     CTCTGATCATGAGTGAAGAAATATTTGGCCCTCTCCTTCCAATCCTCACG                         CTTAACAACTTGGAAGAGAGCTTTGACGTGATTCGTTCTCGACCTAAGCCA
genomic: CTCTGATCATGAGTGAAGAAATATTTGGCCCTCTCCTTCCAATCCTCACGgtaggaacta ... ttattttcagCTTAACAACTTGGAAGAGAGCTTTGACGTGATTCGTTCTCGACCTAAGCCA
EST: gi|86080652|gb|DR376409.1|DR376409
EST:     CTCTGATCATGAGTGAAGAAATATTTGGCCCTCTCCTTCCAATCCTCACG                         CTTAACAACTTGGAAGAGAGCTTTGACGTGATTCGTTCTCGACCTAAGCCA
genomic: CTCTGATCATGAGTGAAGAAATATTTGGCCCTCTCCTTCCAATCCTCACGgtaggaacta ... ttattttcagCTTAACAACTTGGAAGAGAGCTTTGACGTGATTCGTTCTCGACCTAAGCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taagctctgcttcatctcttgaaggcaaattttaactctcttttgttattttcagCTTAACAACTTGGAAGAGAGCTTTGACGTGATTCGTTCTCGACCTAAGCCACTTGCGGCATACTTGTTTACACATAACAAGAAGTTGAAAGAGAGATTCG
                             ttttaac  putative branch site (score: 2)
                                   ctctcttttgttattt  CT-rich tract
                                      tcttttgttatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaggaactatttttcattctatgtaagctctgcttcatctcttgaaggcaaattttaactctcttttgttattttcagCTTAACAACTTGGAAGAGAGCTTTGACGTGATTCGTTCTCGACCTAAGCCACTTGCGGCATACTTGTTTACACATAACAAGAAGTTGAAAGAGAGATTCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA