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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCCCAACAGCTTGCCCTAATTGTCTTCCTGCTTATATATACCTGAAATTAGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAGgtttgcttctgttttgattcctcgcttcgtattttggttgttgttagattaaggttttggttgcgtgatgtgtatctgttggaagtgaacattgttaatt...

Basic information

species Arabidopsis thaliana
transcript AT2G19080.1
intron # 1
splice site 5'
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|86050759|gb|DR346514.1|DR346514
EST:     AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAG                         ATGAACTGCCGTACTTTGAAAGTGATACATATGTTGCATATAACAATGAAG
genomic: AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAGgtttgcttct ... tttaatatagATGAACTGCCGTACTTTGAAAGTGATACATATGTTGCATATAACAATGAAG
EST: gi|86050757|gb|DR346512.1|DR346512
EST:     AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAG                         ATGAACTGCCGTACTTTGAAAGTGATACATATGTTGCATATAACAATGAAG
genomic: AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAGgtttgcttct ... tttaatatagATGAACTGCCGTACTTTGAAAGTGATACATATGTTGCATATAACAATGAAG
EST: gi|164188091|gb|ES048027.1|ES048027
EST:     CCCAGCTTACCTTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAG                         ATGAACTGCCGTACTTTGAAAGTGATACAT
genomic: CCCAGC-TACC-TTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAGgtttgcttct ... tttaatatagATGAACTGCCGTACTTTGAAAGTGATACAT
EST: gi|86050753|gb|DR346508.1|DR346508
EST:     AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAG                         ATGAACTGCCGTACTTTGAAAGTGATACATATGTTGCATATAACAATGAAG
genomic: AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAGgtttgcttct ... tttaatatagATGAACTGCCGTACTTTGAAAGTGATACATATGTTGCATATAACAATGAAG
EST: gi|86050756|gb|DR346511.1|DR346511
EST:     AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAG                         ATGAACTGCCGTACTTTGAAAGTGATACATATGTTGCATATAACAATGAAG
genomic: AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAGgtttgcttct ... tttaatatagATGAACTGCCGTACTTTGAAAGTGATACATATGTTGCATATAACAATGAAG
EST: gi|86050755|gb|DR346510.1|DR346510
EST:     AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAG                         ATGAACTGCCGTACTTTGAAAGTGATACATATGTTGCATATAACAATGAAG
genomic: AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAGgtttgcttct ... tttaatatagATGAACTGCCGTACTTTGAAAGTGATACATATGTTGCATATAACAATGAAG
EST: gi|86050758|gb|DR346513.1|DR346513
EST:     AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAG                         ATGAACTGCCGTACTTTGAAAGTGATACATATGTTGCATATAACAATGAAG
genomic: AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAGgtttgcttct ... tttaatatagATGAACTGCCGTACTTTGAAAGTGATACATATGTTGCATATAACAATGAAG
EST: gi|86050762|gb|DR346517.1|DR346517
EST:     AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAG                         ATGAACTGCCGTACTTTGAAAGTGATACATATGTTGCATATAACAATGAAG
genomic: AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAGgtttgcttct ... tttaatatagATGAACTGCCGTACTTTGAAAGTGATACATATGTTGCATATAACAATGAAG
EST: gi|164027235|gb|ES033163.1|ES033163
EST:     AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAG                         ATGAACTGCCGTACTTTGAAAGTGATACAT
genomic: AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAGgtttgcttct ... tttaatatagATGAACTGCCGTACTTTGAAAGTGATACAT
EST: gi|86050764|gb|DR346519.1|DR346519
EST:     AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAG                         ATGAACTGCCGTACTTTGAAAGTGATACATATGTTGCATATAACAATGAAG
genomic: AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAGgtttgcttct ... tttaatatagATGAACTGCCGTACTTTGAAAGTGATACATATGTTGCATATAACAATGAAG
EST: gi|86050751|gb|DR346506.1|DR346506
EST:     AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAG                         ATGAACTGCCGTACTTTGAAAGTGATACATATGTTGCATATAACAATGAAG
genomic: AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAGgtttgcttct ... tttaatatagATGAACTGCCGTACTTTGAAAGTGATACATATGTTGCATATAACAATGAAG
EST: gi|86050754|gb|DR346509.1|DR346509
EST:     AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAG                         ATGAACTGCCGTACTTTGAAAGTGATACATATGTTGCATATAACAATGAAG
genomic: AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAGgtttgcttct ... tttaatatagATGAACTGCCGTACTTTGAAAGTGATACATATGTTGCATATAACAATGAAG
EST: gi|86050760|gb|DR346515.1|DR346515
EST:     AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAG                         ATGAACTGCCGTACTTTGAAAGTGATACATATGTTGCATATAACAATGAAG
genomic: AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAGgtttgcttct ... tttaatatagATGAACTGCCGTACTTTGAAAGTGATACATATGTTGCATATAACAATGAAG
EST: gi|86050761|gb|DR346516.1|DR346516
EST:     AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAG                         ATGAACTGCCGTACTTTGAAAGTGATACATATGTTGCATATAACAATGAAG
genomic: AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAGgtttgcttct ... tttaatatagATGAACTGCCGTACTTTGAAAGTGATACATATGTTGCATATAACAATGAAG
EST: gi|86050752|gb|DR346507.1|DR346507
EST:     AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAG                         ATGAACTGCCGTACTTTGAAAGTGATACATATGTTGCATATAACAATGAAG
genomic: AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAGgtttgcttct ... tttaatatagATGAACTGCCGTACTTTGAAAGTGATACATATGTTGCATATAACAATGAAG
EST: gi|86050750|gb|DR346505.1|DR346505
EST:     AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAG                         ATGAACTGCCGAACTTTGA
genomic: AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAGgtttgcttct ... tttaatatagATGAACTGCCGTACTTTGA
EST: gi|152035296|gb|BP850207.2|BP850207
EST:     GCCCAGCCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAG                         ATGAACTGGCGTACTTTGAAAGTGATACATATGTTGCATATAACAATGAAG
genomic: GCCCAG-CTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAGgtttgcttct ... tttaatatagATGAACTGCCGTACTTTGAAAGTGATACATATGTTGCATATAACAATGAAG
EST: gi|86050765|gb|DR346520.1|DR346520
EST:     AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAG                         ATGAACTGCCGTACTTTGAAAGTGATACATATGTTGCATATAACAATGAAG
genomic: AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAGgtttgcttct ... tttaatatagATGAACTGCCGTACTTTGAAAGTGATACATATGTTGCATATAACAATGAAG
EST: gi|86050749|gb|DR346504.1|DR346504
EST:     AGCCCAGCTACCTTTTGMACTTGCGTTCAATTCAACCTTCCCTGATTCAG                         ATGAACTGCCGTACTTTGAAAGTGATACATATGTTGCATATAMSAATGAAG
genomic: AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAGgtttgcttct ... tttaatatagATGAACTGCCGTACTTTGAAAGTGATACATATGTTGCATATAACAATGAAG
EST: gi|86050763|gb|DR346518.1|DR346518
EST:     AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAG                         ATGAACTGCCGTACTTTGAAAGTGATACATATGTTGCATATAACAATGAAG
genomic: AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAGgtttgcttct ... tttaatatagATGAACTGCCGTACTTTGAAAGTGATACATATGTTGCATATAACAATGAAG
EST: gi|86050748|gb|DR346503.1|DR346503
EST:     AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAASCTTCCCTGATTCAG                         ATGAACTGCCGTACTTTGAAAGTGATACATATGTTGCATATAACAATGAAG
genomic: AGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAGgtttgcttct ... tttaatatagATGAACTGCCGTACTTTGAAAGTGATACATATGTTGCATATAACAATGAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTCCCAACAGCTTGCCCTAATTGTCTTCCTGCTTATATATACCTGAAATTAGCCCAGCTACCTTTTGAACTTGCGTTCAATTCAACCTTCCCTGATTCAGgtttgcttctgttttgattcctcgcttcgtattttggttgttgttagattaaggttttggttgcgtgatgtgtatctgttggaagtgaacattgttaatt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cctcgctt