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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgttctctctcttaacttgaaattttttgcagttggatttcccagttggtagatactttacagttcactcaatgtagcctctagaattcatgttaatgtgcagaaaaccattgttaaaagatgcaacatcactactgatagcagctgctaggttataactaacttgctcatctttgatgcagGAAAAGCTGCCGCAATTCATTACGGCACTGGAGCAATTGCTGGTTTTTTTAGTAATGATGCTGTCACAGTTGGCGATTTAGTTGTCAAGGATCAG

Basic information

species Arabidopsis thaliana
transcript AT1G11910.1
intron # 3
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|124747454|gb|EH837584.1|EH837584
EST:     CTTGCATCCCAAATACAAGTCGTCTCGTTCAAGCACATATGAGAAGAATG                         GAAAAGCTGCCGCAATTCATT
genomic: CTTGCATCCCAAATACAAGTCGTCTCGTTCAAGCACATATGAGAAGAATGgtttgttctc ... tttgatgcagGAAAAGCTGCCGCAATTCATT
EST: gi|125313502|gb|EL327587.1|EL327587
EST:     CTTGCATCCCAAATACAAGTCGTCTCGTTCAAGCACATATGAGAAGAATG                         GAAAAGCTGCCGCAATTCATTACG
genomic: CTTGCATCCCAAATACAAGTCGTCTCGTTCAAGCACATATGAGAAGAATGgtttgttctc ... tttgatgcagGAAAAGCTGCCGCAATTCATTACG
EST: gi|152033756|gb|BP560644.3|BP560644
EST:     CTTGCATCCCAAATACAAGTCGTCTCGTTCAAGCACATATGAGAAGAATG                         GAAAAGCNTGCCGCAATTCATTACNGGCACTGGAGCAATTGCTGGNNNNNN
genomic: CTTGCATCCCAAATACAAGTCGTCTCGTTCAAGCACATATGAGAAGAATGgtttgttctc ... tttgatgcagGAAAAGC-TGCCGCAATTCATTAC-GGCACTGGAGCAATTGCTGGTTTTTT
EST: gi|301502694|gb|HO208234.1|HO208234
EST:     CTTGCATCCCAAATACAAGTCGTCTCGTTCAAGCACATATGAGAAGAATG                         GAAAAGCTGCCGCAATTCATTACGGCACTGGAGCAATTGCTGGNNNNNNNA
genomic: CTTGCATCCCAAATACAAGTCGTCTCGTTCAAGCACATATGAGAAGAATGgtttgttctc ... tttgatgcagGAAAAGCTGCCGCAATTCATTACGGCACTGGAGCAATTGCTGGTTTTTTTA
EST: gi|124955465|gb|EL030477.1|EL030477
EST:     ATACAAGTCGTCTCGTTCAAGCACATTATGAGAAGAATG                         GAAAAGCTGCCGCAATTCATTACGGCACTGGAG
genomic: ATACAAGTCGTCTCGTTCAAGCACA-TATGAGAAGAATGgtttgttctc ... tttgatgcagGAAAAGCTGCCGCAATTCATTACGGCACTGGAG
EST: gi|124704257|gb|EH795659.1|EH795659
EST:     CAAATACAAGTCGTCTCGTTCAAGCACATATGAGAAGAATG                         GAAAAGCTGCCGCAATTCATTACGGCACTGGAGCAATTGCTGGTTTTTT
genomic: CAAATACAAGTCGTCTCGTTCAAGCACATATGAGAAGAATGgtttgttctc ... tttgatgcagGAAAAGCTGCCGCAATTCATTACGGCACTGGAGCAATTGCTGGTTTTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcactactgatagcagctgctaggttataactaacttgctcatctttgatgcagGAAAAGCTGCCGCAATTCATTACGGCACTGGAGCAATTGCTGGTTTTTTTAGTAATGATGCTGTCACAGTTGGCGATTTAGTTGTCAAGGATCAG
                                       ctcatcttt  CT-rich tract
                         ttataactaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttgttctctctcttaacttgaaattttttgcagttggatttcccagttggtagatactttacagttcactcaatgtagcctctagaattcatgttaatgtgcagaaaaccattgttaaaagatgcaacatcactactgatagcagctgctaggttataactaacttgctcatctttgatgcagGAAAAGCTGCCGCAATTCATTACGGCACTGGAGCAATTGCTGGTTTTTTTAGTAATGATGCTGTCACAGTTGGCGATTTAGTTGTCAAGGATCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG