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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaattctatttctcaataccgctatttttacgaatactcaaatgattttgaattcatctcaagaccatctataacacttttcctatgttctgtagGTCTATGTATGGAGTAAACAAAATCCTTACATCCACATGAGTTTCCTTGGCCTCTTCACTTTCACAGCAGCTTATTTACCATGG

Basic information

species Arabidopsis thaliana
transcript AT4G21810.1
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|164073254|gb|EL975585.1|EL975585
EST:     CAATTCATTGACTTTCATGATG                         GTCTATGTATGGAGTAAACAAAATCCTTACATCCACATGAGTTTCCTTGGC
genomic: CAATTCATTGACTTTCATGATGgtaaattcta ... tgttctgtagGTCTATGTATGGAGTAAACAAAATCCTTACATCCACATGAGTTTCCTTGGC
EST: gi|124729021|gb|EH820423.1|EH820423
EST:     CCAAAATCATCTTCCTCAGCAATTCATTGACTTTCATGATG                         GTCTATGTATGGAGTAAACAAAATCCTTACATCCACATGAGTT
genomic: CCAAAATCATCTTCCTCAGCAATTCATTGACTTTCATGATGgtaaattcta ... tgttctgtagGTCTATGTATGGAGTAAACAAAATCCTTACATCCACATGAGTT
EST: gi|125103542|gb|EL157912.1|EL157912
EST:     TTTCATTCTCCAAAATCATCTTCCTCAGCAATTCATTGACTTTCATGATG                         GTCTCTGTATGGAGTAAACAA
genomic: TTTCATTCTCCAAAATCATCTTCCTCAGCAATTCATTGACTTTCATGATGgtaaattcta ... tgttctgtagGTCTATGTATGGAGTAAACAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgattttgaattcatctcaagaccatctataacacttttcctatgttctgtagGTCTATGTATGGAGTAAACAAAATCCTTACATCCACATGAGTTTCCTTGGCCTCTTCACTTTCACAGCAGCTTATTTACCATGG
                            ctataac  putative branch site (score: 3)
                                    cttttcctatgttct  CT-rich tract
     ttttgaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaattctatttctcaataccgctatttttacgaatactcaaatgattttgaattcatctcaagaccatctataacacttttcctatgttctgtagGTCTATGTATGGAGTAAACAAAATCCTTACATCCACATGAGTTTCCTTGGCCTCTTCACTTTCACAGCAGCTTATTTACCATGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT