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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtcaaaacctacataagtacatacactgtgattccatttctatgctatgcattataatagtacgtctccattgtctctctcagGGACTGGTTGCGAAAGACAAGTTTCACGTAAGCTACCAAGGGCAAGCTCTAAACAGATCTTTGTCACAG

Basic information

species Arabidopsis thaliana
transcript AT5G04740.2
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|125018449|gb|EL090718.1|EL090718
EST:     TCAACATAGACGTGGAATCCGCAGAGATAGATACAGAG                         GGACTGGTTGCGAAAGACAAGTTTCACGTAAGCTACCAAGGGCAAGCTCTA
genomic: TCAACATAGACGTGGAATCCGCAGAGATAGATACAGAGgtagtcaaaa ... tctctctcagGGACTGGTTGCGAAAGACAAGTTTCACGTAAGCTACCAAGGGCAAGCTCTA
EST: gi|86082088|gb|DR377847.1|DR377847
EST:     TGATGGCTGATGTCAACATAGACGTGGAATCCGCAGAGATAGATACAGAG                         GGACTGGTTGCGAAAGACAAGTTTCACGTAAGCTACCAAGGGCAAGCTCTA
genomic: TGATGGCTGATGTCAACATAGACGTGGAATCCGCAGAGATAGATACAGAGgtagtcaaaa ... tctctctcagGGACTGGTTGCGAAAGACAAGTTTCACGTAAGCTACCAAGGGCAAGCTCTA
EST: gi|124938316|gb|EL014958.1|EL014958
EST:     GATGGCTGATGTCTAACATAGACGTGGAATCCGCAGAGATAGATACAGAG                         GGACTGGTTGCGAAAGACAAGTTTCACGTAAGCTACCAAGGG
genomic: GATGGCTGATGTC-AACATAGACGTGGAATCCGCAGAGATAGATACAGAGgtagtcaaaa ... tctctctcagGGACTGGTTGCGAAAGACAAGTTTCACGTAAGCTACCAAGGG
EST: gi|124859021|gb|EH943458.1|EH943458
EST:     TGATGGCTGATGTCAACATAGACGTGGAATCCGCAGAGATAGATACAGAG                         GGACTGGTTGCGAAAGACAAGTTT
genomic: TGATGGCTGATGTCAACATAGACGTGGAATCCGCAGAGATAGATACAGAGgtagtcaaaa ... tctctctcagGGACTGGTTGCGAAAGACAAGTTT
EST: gi|164101714|gb|ES047273.1|ES047273
EST:     TGATGGCTGATGTCAACATAGACGTGGAATCCGCAGAGATAGATACAGAG                         GGACTGGTTGCGAAAGACAAGTTTCACGTAAGCTACCAAGGGCAAG
genomic: TGATGGCTGATGTCAACATAGACGTGGAATCCGCAGAGATAGATACAGAGgtagtcaaaa ... tctctctcagGGACTGGTTGCGAAAGACAAGTTTCACGTAAGCTACCAAGGGCAAG
EST: gi|86079610|gb|DR375367.1|DR375367
EST:     TGATGGCTGATGTCAACATAGACGTGGAATCCGCAGAGATAGATACAGAG                         GGACTGGTTGCGAAAGACAAGTTTCACGTAAGCTACCAAGGGCAAGCTCTA
genomic: TGATGGCTGATGTCAACATAGACGTGGAATCCGCAGAGATAGATACAGAGgtagtcaaaa ... tctctctcagGGACTGGTTGCGAAAGACAAGTTTCACGTAAGCTACCAAGGGCAAGCTCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgattccatttctatgctatgcattataatagtacgtctccattgtctctctcagGGACTGGTTGCGAAAGACAAGTTTCACGTAAGCTACCAAGGGCAAGCTCTAAACAGATCTTTGTCACAG
                                    tctccattgtctctct  CT-rich tract
                 tatgcattataata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagtcaaaacctacataagtacatacactgtgattccatttctatgctatgcattataatagtacgtctccattgtctctctcagGGACTGGTTGCGAAAGACAAGTTTCACGTAAGCTACCAAGGGCAAGCTCTAAACAGATCTTTGTCACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT