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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtggcctaccctttctaagttttggtcttccaacttgtaaattttttttggactagcttttctgttagttgtttaacatggcctttttcaacagGAATGACACTTCTAACCTGCCAAAAACATTCAAGCAGAAGAGAGAGGAACAAAGAAAGGCATCTGAAGCTGGTGGAGATACAAAGGCTTGGAATAGTTTA

Basic information

species Arabidopsis thaliana
transcript AT4G19610.1
intron # 6
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|116458756|gb|EG501348.1|EG501348
EST:     TTGTTGCATATTTTGCCAGCTAAGCACCGTGAAACATCTGATAAACAAGT                         GAATGACACTTCTAACCTGCCAAAAACATTCAAGCAGAAGAGAGAGGAACA
genomic: TTGTTGCATATTTTGCCAGCTAAGCACCGTGAAACATCTGATAAACAAGTgtcagtggcc ... ttttcaacagGAATGACACTTCTAACCTGCCAAAAACATTCAAGCAGAAGAGAGAGGAACA
EST: gi|116458749|gb|EG501341.1|EG501341
EST:     TTGTTGCATATTTTGCCAGCTAAGCACCGTGAAACATCTGATAAACAAGT                         GAATGACACTTCTAACCTGCCAAAAACATTCAAGCAGAAGAGAGAGGAACA
genomic: TTGTTGCATATTTTGCCAGCTAAGCACCGTGAAACATCTGATAAACAAGTgtcagtggcc ... ttttcaacagGAATGACACTTCTAACCTGCCAAAAACATTCAAGCAGAAGAGAGAGGAACA
EST: gi|116413073|gb|EG455665.1|EG455665
EST:     TTGTTGCATATTTTGCCAGCTAAGCACCGTGAAACATCTGATAAACAAGT                         GAATGACACTTCTAACCTGCCAAAAACATTCAAGCAGAAGAGAGAGGAACA
genomic: TTGTTGCATATTTTGCCAGCTAAGCACCGTGAAACATCTGATAAACAAGTgtcagtggcc ... ttttcaacagGAATGACACTTCTAACCTGCCAAAAACATTCAAGCAGAAGAGAGAGGAACA
EST: gi|116413069|gb|EG455661.1|EG455661
EST:     TTGTTGCATATTTTGCCAGCTAAGCACCGTGAAACATCTGATAAACAAGT                         GAATGACACTTCTAACCTGCCAAAAACATTCAAGTAGAAGAGAGAGGAACA
genomic: TTGTTGCATATTTTGCCAGCTAAGCACCGTGAAACATCTGATAAACAAGTgtcagtggcc ... ttttcaacagGAATGACACTTCTAACCTGCCAAAAACATTCAAGCAGAAGAGAGAGGAACA
EST: gi|116413075|gb|EG455667.1|EG455667
EST:     TTGTTGCATATTTTGCCAGCTAAGCACCGTGAAACATCTGAT-AACAAGT                         GAATGACACTTCTAGCCTGCCAAAAACATTCAAGCAGAAGAGAGAGGAACA
genomic: TTGTTGCATATTTTGCCAGCTAAGCACCGTGAAACATCTGATAAACAAGTgtcagtggcc ... ttttcaacagGAATGACACTTCTAACCTGCCAAAAACATTCAAGCAGAAGAGAGAGGAACA
EST: gi|116458754|gb|EG501346.1|EG501346
EST:     TTGTTGCATATTTTGCCAGCTAAGCACCGTGAAACATCTGATAAACAAGT                         GAATGACACTTCTAACCTGCCAAAAACATTCAAGCAGAAGAGAGAGGAACA
genomic: TTGTTGCATATTTTGCCAGCTAAGCACCGTGAAACATCTGATAAACAAGTgtcagtggcc ... ttttcaacagGAATGACACTTCTAACCTGCCAAAAACATTCAAGCAGAAGAGAGAGGAACA
EST: gi|164189039|gb|ES058552.1|ES058552
EST:     TTGTTGCATATTTTGCCAGCTAAGCACCGTGAAACATCTGATAAACAAGT                         GAATGACACTTC
genomic: TTGTTGCATATTTTGCCAGCTAAGCACCGTGAAACATCTGATAAACAAGTgtcagtggcc ... ttttcaacagGAATGACACTTC
EST: gi|116458745|gb|EG501337.1|EG501337
EST:     TTGTTGCATATTTTGCCAGCTAAGCACCGTGAAACATCTGATAAACAAGT                         GAATGACACTTCTAACCTGCCAAAAACATTCAAGCAGAAGAGAGAGGAACA
genomic: TTGTTGCATATTTTGCCAGCTAAGCACCGTGAAACATCTGATAAACAAGTgtcagtggcc ... ttttcaacagGAATGACACTTCTAACCTGCCAAAAACATTCAAGCAGAAGAGAGAGGAACA
EST: gi|116413072|gb|EG455664.1|EG455664
EST:     CACCGTGAAACATCTGATAAACAAGT                         GAATGACACTTCTAACCTGCCAAAAACATTCAAGCAGAAGAGAGAGGAACA
genomic: CACCGTGAAACATCTGATAAACAAGTgtcagtggcc ... ttttcaacagGAATGACACTTCTAACCTGCCAAAAACATTCAAGCAGAAGAGAGAGGAACA
EST: gi|164180900|gb|EL967145.1|EL967145
EST:     TTGTTGCATATTTTGCCAGCTAAGCACCGTGAAACATCTGATAAACAAGT                         GAATGACACTTCTAACCT
genomic: TTGTTGCATATTTTGCCAGCTAAGCACCGTGAAACATCTGATAAACAAGTgtcagtggcc ... ttttcaacagGAATGACACTTCTAACCT
EST: gi|116413070|gb|EG455662.1|EG455662
EST:     TTGTTGCATATTTTGCCAGCTAAGCACCGTGAAACATCTGATAAACAAGT                         GAATGACACTTCTAACCTGCCAAAAACATTCAAGCAGAAGAGAGAGGAACA
genomic: TTGTTGCATATTTTGCCAGCTAAGCACCGTGAAACATCTGATAAACAAGTgtcagtggcc ... ttttcaacagGAATGACACTTCTAACCTGCCAAAAACATTCAAGCAGAAGAGAGAGGAACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattttttttggactagcttttctgttagttgtttaacatggcctttttcaacagGAATGACACTTCTAACCTGCCAAAAACATTCAAGCAGAAGAGAGAGGAACAAAGAAAGGCATCTGAAGCTGGTGGAGATACAAAGGCTTGGAATAGTTTA
                               gtttaac  putative branch site (score: 3)
                                          cctttttc  putative PPT
                             ttgtttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcagtggcctaccctttctaagttttggtcttccaacttgtaaattttttttggactagcttttctgttagttgtttaacatggcctttttcaacagGAATGACACTTCTAACCTGCCAAAAACATTCAAGCAGAAGAGAGAGGAACAAAGAAAGGCATCTGAAGCTGGTGGAGATACAAAGGCTTGGAATAGTTTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT