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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtatattctttatggacaaagtagttcatggaagaaccaaaatcaatcgcaagctgttgatcgtctaatagtagactaatcagactgtgtttgttaatagAATGTGGCCAGAGCCTGAATCCAATGTTGTATCAAGGGACACAGTAGCATCAGATGAACGGCTGCGGTTAGAGTCTGAGGACTGTGATTCATCAAAA

Basic information

species Arabidopsis thaliana
transcript AT4G26940.1
intron # 1
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|86052773|gb|DR348530.1|DR348530
EST:     TTATTTCTCTGTATCGGTTTCTTCTGCGCAGGAATTCTCTTCTCCGACAG                         AATGTGGCCAGAGCCTGAATCCAATGTTGTATCAAGGGACACAGTAGCATC
genomic: TTATTTCTCTGTATCGGTTTCTTCTGCGCAGGAATTCTCTTCTCCGACAGgtaacaaaac ... ttgttaatagAATGTGGCCAGAGCCTGAATCCAATGTTGTATCAAGGGACACAGTAGCATC
EST: gi|116483920|gb|EG526512.1|EG526512
EST:     TTATTTCTCTGTATCGGTTTCTTCTGCGCAGGAATTCTCTTCTCCGACAG                         AATGTGGCCAGAGCCTGAATCCAATGTTGTATCAAGGGACACAGTAGCATC
genomic: TTATTTCTCTGTATCGGTTTCTTCTGCGCAGGAATTCTCTTCTCCGACAGgtaacaaaac ... ttgttaatagAATGTGGCCAGAGCCTGAATCCAATGTTGTATCAAGGGACACAGTAGCATC
EST: gi|116459773|gb|EG502365.1|EG502365
EST:     TTATTTCTCTGTATCGGTTTCTTCTGCGCAGGAATTCTCTTCTCCGACAG                         AATGTGGCCAGAGCCTGAATCCAATGTTGTATCAAGGGACACAGTAGCATC
genomic: TTATTTCTCTGTATCGGTTTCTTCTGCGCAGGAATTCTCTTCTCCGACAGgtaacaaaac ... ttgttaatagAATGTGGCCAGAGCCTGAATCCAATGTTGTATCAAGGGACACAGTAGCATC
EST: gi|116459771|gb|EG502363.1|EG502363
EST:     TTATTTCTCTGTATCGGTTTCTTCTGCGCAGGAATTCTCTTCTCCGACAG                         AATGTGGCCAGAGCCTGAATCCAATGTTGTATCAAGGGACACAGTAGCATC
genomic: TTATTTCTCTGTATCGGTTTCTTCTGCGCAGGAATTCTCTTCTCCGACAGgtaacaaaac ... ttgttaatagAATGTGGCCAGAGCCTGAATCCAATGTTGTATCAAGGGACACAGTAGCATC
EST: gi|125105050|gb|EL158934.1|EL158934
EST:     CTTCTCCGACAG                         AATGTGGCCAGAGCCTGAATCCAATGTTGTATCAAGGGACACAGTAGCATC
genomic: CTTCTCCGACAGgtaacaaaac ... ttgttaatagAATGTGGCCAGAGCCTGAATCCAATGTTGTATCAAGGGACACAGTAGCATC
EST: gi|86052774|gb|DR348531.1|DR348531
EST:     TTATTTCTCTGTATCGGTTTCTTCTGCGCAGGAATTCTCTTCTCCGACAG                         AATGTGGCCAGAGCCTGAATCCAATGTTGTATCAAGGGACACAGTAGCATC
genomic: TTATTTCTCTGTATCGGTTTCTTCTGCGCAGGAATTCTCTTCTCCGACAGgtaacaaaac ... ttgttaatagAATGTGGCCAGAGCCTGAATCCAATGTTGTATCAAGGGACACAGTAGCATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcgcaagctgttgatcgtctaatagtagactaatcagactgtgtttgttaatagAATGTGGCCAGAGCCTGAATCCAATGTTGTATCAAGGGACACAGTAGCATCAGATGAACGGCTGCGGTTAGAGTCTGAGGACTGTGATTCATCAAAA
                            gactaat  putative branch site (score: 2)
                                            tttgttaata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatattctttatggacaaagtagttcatggaagaaccaaaatcaatcgcaagctgttgatcgtctaatagtagactaatcagactgtgtttgttaatagAATGTGGCCAGAGCCTGAATCCAATGTTGTATCAAGGGACACAGTAGCATCAGATGAACGGCTGCGGTTAGAGTCTGAGGACTGTGATTCATCAAAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG