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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTTAATAAACAGAAGCCGTTCTCCTTCACTTTCGTTCCTCTCACTTCCATACAACATTTGAAACCTCAGCTATGCCTAAATCAAAGCGAGATAGACCAGgttagaactcttcttccttcactctttctgctctctattgtctgaaccattgtatctctgtcactggttttggaagctgtaacttttgtagccgccgtca...

Basic information

species Arabidopsis thaliana
transcript AT1G25260.1
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|86050076|gb|DR345831.1|DR345831
EST:     TACAACATTTGAAACCTCAGCTATGCCTAAATCAAAGCGAGATAGACCAG                         TGACTTTGTCTAAGACGAAGAAGAAAGGAAGAGAGCATAAGGAGTGTATTG
genomic: TACAACATTTGAAACCTCAGCTATGCCTAAATCAAAGCGAGATAGACCAGgttagaactc ... tttgctgcagTGACTTTGTCTAAGACGAAGAAGAAAGGAAGAGAGCATAAGGAGTGTATTG
EST: gi|86050071|gb|DR345826.1|DR345826
EST:     TACAACATTTGAAACCTCAGCTATGCCTAAATCAAAGCGAGATAGACCAG                         TGACTTTGTCTAAGACGAAGAAGAAAGGAAGAGAGCATAAGGAGTGTATTG
genomic: TACAACATTTGAAACCTCAGCTATGCCTAAATCAAAGCGAGATAGACCAGgttagaactc ... tttgctgcagTGACTTTGTCTAAGACGAAGAAGAAAGGAAGAGAGCATAAGGAGTGTATTG
EST: gi|86050072|gb|DR345827.1|DR345827
EST:     TACAACATTTGAAACCTCAG--ATGCCTAAATCAAAGCGAGATAGACCAG                         TGACTTTGTCTAAGACGAAGAAGAAAGGAAGAGAGCATAAGGAGTGTATTG
genomic: TACAACATTTGAAACCTCAGCTATGCCTAAATCAAAGCGAGATAGACCAGgttagaactc ... tttgctgcagTGACTTTGTCTAAGACGAAGAAGAAAGGAAGAGAGCATAAGGAGTGTATTG
EST: gi|124902471|gb|EH976551.1|EH976551
EST:     CTATGCCTAAATCAAAGCGAGATAGACCAG                         TGACTTTGTCTAAGACGAAGAAGAAAGGAAGAGAGCATAAGGAGTGTATTG
genomic: CTATGCCTAAATCAAAGCGAGATAGACCAGgttagaactc ... tttgctgcagTGACTTTGTCTAAGACGAAGAAGAAAGGAAGAGAGCATAAGGAGTGTATTG
EST: gi|163981435|gb|ES117255.1|ES117255
EST:     GCCTAAATCAAAGCGAGATAGACCAG                         TGACTTTGTCTAAGACGAAGAAGAAAGGAAGAGAGCATAAGGAGTGTATTG
genomic: GCCTAAATCAAAGCGAGATAGACCAGgttagaactc ... tttgctgcagTGACTTTGTCTAAGACGAAGAAGAAAGGAAGAGAGCATAAGGAGTGTATTG
EST: gi|86050070|gb|DR345825.1|DR345825
EST:     TACAACATTTGAAACCTCAGCTATGCCTAAATCAAAGCGAGATAGACCAG                         TGACTTTGTCTAAGACGAAGAAGAAAGGAAGAGAGCATAAGGAGTGTATTG
genomic: TACAACATTTGAAACCTCAGCTATGCCTAAATCAAAGCGAGATAGACCAGgttagaactc ... tttgctgcagTGACTTTGTCTAAGACGAAGAAGAAAGGAAGAGAGCATAAGGAGTGTATTG
EST: gi|86050065|gb|DR345820.1|DR345820
EST:     TACAACATTTGAAACCTCAGCTATGCCTAAATCAAAGCGAGATAGACCAG                         TGACTTTGTCTAAGACGAAGAAGAAAGGAAGAGAGCATAAGGAGTGTATTG
genomic: TACAACATTTGAAACCTCAGCTATGCCTAAATCAAAGCGAGATAGACCAGgttagaactc ... tttgctgcagTGACTTTGTCTAAGACGAAGAAGAAAGGAAGAGAGCATAAGGAGTGTATTG
EST: gi|116470214|gb|EG512806.1|EG512806
EST:     TACAACATTTGAAACCTCAGCTATGCCTAAATCAAAGCGAGATAGACCAG                         TGACTTTGTCTAAGACGAAGAAGAAAGGAAGAGAGCATAAGGAGTGTATTG
genomic: TACAACATTTGAAACCTCAGCTATGCCTAAATCAAAGCGAGATAGACCAGgttagaactc ... tttgctgcagTGACTTTGTCTAAGACGAAGAAGAAAGGAAGAGAGCATAAGGAGTGTATTG
EST: gi|164124019|gb|EL984282.1|EL984282
EST:     GCTATGCCTAAATCAAAGCGAGATAGACCAG                         T
genomic: GCTATGCCTAAATCAAAGCGAGATAGACCAGgttagaactc ... tttgctgcag-
EST: gi|164124019|gb|EL984282.1|EL984282
EST:     GCTATGCCTAAATCAAAGCGAGATAGACCAG                         T
genomic: GCTATGCCTAAATCAAAGCGAGATAGACCAGgttagaactc ... tttgctgcag-
EST: gi|86050077|gb|DR345832.1|DR345832
EST:     TACAACATTTGAAACCTCAGCTATGCCTAAATCAAAGCGAGATAGACCAG                         TGACTTTGTCTAAGACGAAGAAGAAAGGAAGAGAGCATAAGGAGTGTATTG
genomic: TACAACATTTGAAACCTCAGCTATGCCTAAATCAAAGCGAGATAGACCAGgttagaactc ... tttgctgcagTGACTTTGTCTAAGACGAAGAAGAAAGGAAGAGAGCATAAGGAGTGTATTG
EST: gi|86050073|gb|DR345828.1|DR345828
EST:     TACAACATTTGAAACCTCAGCTATGCCTAAATCAAAGCGAGATAGACCAG                         TGACTTTGTCTAAGACGAAGAAGAAAGGAAGAGAGCATAAGGAGTGTATTG
genomic: TACAACATTTGAAACCTCAGCTATGCCTAAATCAAAGCGAGATAGACCAGgttagaactc ... tttgctgcagTGACTTTGTCTAAGACGAAGAAGAAAGGAAGAGAGCATAAGGAGTGTATTG
EST: gi|86050069|gb|DR345824.1|DR345824
EST:     TACAACATTTGAAACCTCAGCTRKGCCTAAATCAAAGCGAGATAGACCAG                         TGACTTTGTCTAAGACGAAGAAGAAAGGAAGAGAGCATAAGGAGTGTATTG
genomic: TACAACATTTGAAACCTCAGCTATGCCTAAATCAAAGCGAGATAGACCAGgttagaactc ... tttgctgcagTGACTTTGTCTAAGACGAAGAAGAAAGGAAGAGAGCATAAGGAGTGTATTG
EST: gi|164065646|gb|ES002686.1|ES002686
EST:     AGCTATGCCTAAATCAAAGCGAGATAGACCAG                         TGACTTTGTCTAAGACGAAGAAGAAAGGAAGAGAGCATAAGGAGTGTATTG
genomic: AGCTATGCCTAAATCAAAGCGAGATAGACCAGgttagaactc ... tttgctgcagTGACTTTGTCTAAGACGAAGAAGAAAGGAAGAGAGCATAAGGAGTGTATTG
EST: gi|125284734|gb|EL298819.1|EL298819
EST:     ACCTCAGCTATGCCTAAATCAAAGCGAGATAGACCAG                         TGACTTTGTCTAAGACGAAGAAGAAAGGAAGAGAGCATAAGG
genomic: ACCTCAGCTATGCCTAAATCAAAGCGAGATAGACCAGgttagaactc ... tttgctgcagTGACTTTGTCTAAGACGAAGAAGAAAGGAAGAGAGCATAAGG
EST: gi|86050075|gb|DR345830.1|DR345830
EST:     TACAACATTTGAAACCTCAGCTATGCCTAAATCAAAGCGAGATAGACCAG                         TGACTTTGTCTAAGACGAAGAAGAAAGGAAGAGAGCATAAGGAGTGTATTG
genomic: TACAACATTTGAAACCTCAGCTATGCCTAAATCAAAGCGAGATAGACCAGgttagaactc ... tttgctgcagTGACTTTGTCTAAGACGAAGAAGAAAGGAAGAGAGCATAAGGAGTGTATTG
EST: gi|86050067|gb|DR345822.1|DR345822
EST:     TACAACATTTGAAACCTCAGCTATGCCTAAATCAAAGCGAGATAGACCAG                         TGACTTTGTCTAAGACGAAGAAGAAAGGAAGAGAGCATAAGGAGTGTATTG
genomic: TACAACATTTGAAACCTCAGCTATGCCTAAATCAAAGCGAGATAGACCAGgttagaactc ... tttgctgcagTGACTTTGTCTAAGACGAAGAAGAAAGGAAGAGAGCATAAGGAGTGTATTG
EST: gi|152034840|gb|BP837977.2|BP837977
EST:     CAACATTTGAAACCTCAGCTATGCCCTAAACTCAAAGCGAGATAGACCAG                         TGACTTTGTCTAAGACGAAGAAGAAAGGAAGAGAGCATAAGGAGTGTATTG
genomic: CAACATTTGAAACCTCAGCTATG-CCTAAA-TCAAAGCGAGATAGACCAGgttagaactc ... tttgctgcagTGACTTTGTCTAAGACGAAGAAGAAAGGAAGAGAGCATAAGGAGTGTATTG
EST: gi|86050074|gb|DR345829.1|DR345829
EST:     TACAACATTTGAAACCTCAGCTATGCCTAAATCAAAGCGAGATAGACCAG                         TGACTTTGTCTAAGACGAAGAAGAAAGGAAGAGAGCATAAGGAGTGTATTG
genomic: TACAACATTTGAAACCTCAGCTATGCCTAAATCAAAGCGAGATAGACCAGgttagaactc ... tttgctgcagTGACTTTGTCTAAGACGAAGAAGAAAGGAAGAGAGCATAAGGAGTGTATTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTTAATAAACAGAAGCCGTTCTCCTTCACTTTCGTTCCTCTCACTTCCATACAACATTTGAAACCTCAGCTATGCCTAAATCAAAGCGAGATAGACCAGgttagaactcttcttccttcactctttctgctctctattgtctgaaccattgtatctctgtcactggttttggaagctgtaacttttgtagccgccgtca

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttcttcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttcactct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgctctct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tctctgtc