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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atttggatcggatgattttgattggtgtatgaatttttcgatttgatcatatgggttgggtttgaatctatggaatttttaaagttttgattttgttcagATATACAGAAAGAAGAGAGAAATGTACAGAAAGCTATTAAAGAAGCTGCAAAGAGGAATGATATGGTCTCTGCTAAG

Basic information

species Arabidopsis thaliana
transcript AT5G22950.1
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|125189954|gb|EL204908.1|EL204908
EST:     AGTGTCGTAACATCGAACGCCAAATCCGAG                         ATATACAGAAAGAAGAGAGAAATGTACAGAAAGCTATTAAAGAAG
genomic: AGTGTCGTAACATCGAACGCCAAATCCGAGgttcttctat ... ttttgttcagATATACAGAAAGAAGAGAGAAATGTACAGAAAGCTATTAAAGAAG
EST: gi|124747671|gb|EH837801.1|EH837801
EST:     GAACGCCAAATCCGAG                         ATATACAGAAAGAAGAGAGAAATGTACAGAAAGCTATTAAAGAAGCTGCAA
genomic: GAACGCCAAATCCGAGgttcttctat ... ttttgttcagATATACAGAAAGAAGAGAGAAATGTACAGAAAGCTATTAAAGAAGCTGCAA
EST: gi|116474557|gb|EG517149.1|EG517149
EST:     GCAACGCAAATTACGTCAGGAGTGTCGTAACATCGAACGCCAAATCCGAG                         ATATACAGAAAGAAGAGAGAAATGTACAGAAAGCTATTAAAGAAGCTGCAA
genomic: GCAACGCAAATTACGTCAGGAGTGTCGTAACATCGAACGCCAAATCCGAGgttcttctat ... ttttgttcagATATACAGAAAGAAGAGAGAAATGTACAGAAAGCTATTAAAGAAGCTGCAA
EST: gi|124773288|gb|EH863417.1|EH863417
EST:     ACGTCAGGAGTGTCGTAACATCGAACGCCAAATCCGAG                         ATATACAGAAAGAAGAGAGAAATGTACAGAAAGCTATTAAAGAAGCTGCAA
genomic: ACGTCAGGAGTGTCGTAACATCGAACGCCAAATCCGAGgttcttctat ... ttttgttcagATATACAGAAAGAAGAGAGAAATGTACAGAAAGCTATTAAAGAAGCTGCAA
EST: gi|164188717|gb|ES019562.1|ES019562
EST:     ATCGAACGCCAAATCCGAG                         ATATACAGAAAGAAGAGAGAAATGTACAGAAAGCTATTAAAGAAGCTGCAA
genomic: ATCGAACGCCAAATCCGAGgttcttctat ... ttttgttcagATATACAGAAAGAAGAGAGAAATGTACAGAAAGCTATTAAAGAAGCTGCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcatatgggttgggtttgaatctatggaatttttaaagttttgattttgttcagATATACAGAAAGAAGAGAGAAATGTACAGAAAGCTATTAAAGAAGCTGCAAAGAGGAATGATATGGTCTCTGCTAAG
                                       ttttgat  putative branch site (score: 4)
                                             ttttgttc  CT-rich tract
                            aatttttaaagttttg  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atttggatcggatgattttgattggtgtatgaatttttcgatttgatcatatgggttgggtttgaatctatggaatttttaaagttttgattttgttcagATATACAGAAAGAAGAGAGAAATGTACAGAAAGCTATTAAAGAAGCTGCAAAGAGGAATGATATGGTCTCTGCTAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - -gattttg
- - - - - - - - - - - - - - - - - - - -gatttga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggtttga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gttttga