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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCGGGAAGGGTTGGCCGGTTTGTTACAATGGCGACGGCGGCGAGTCCTCTTGAAATCTGCGTTAAAGCTTCTATCACCACTCCCAACAAGCTCGGAGACTgttagttttctctccgtaaactttgaaatgttgatgattagctgcaatttgatccctctttcactcaatttcgaattggagatagataatttgtgttagc...

Basic information

species Arabidopsis thaliana
transcript AT5G16710.1
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|19878642|gb|AU239473.1|AU239473
EST:     TGAAATCTGCGTTAAAGCTTCTATCACCACTCCCAACAAGCTCGGAGACT                         GCCCTTTTTGCCAAAAGGTGTTACTGACAATGGAGGAGAAGAATGTTCCTT
genomic: TGAAATCTGCGTTAAAGCTTCTATCACCACTCCCAACAAGCTCGGAGACTgttagttttc ... ttgttgatagGCCCTTTTTGCCAAAAGGTGTTACTGACAATGGAGGAGAAGAATGTTCCTT
EST: gi|116480640|gb|EG523232.1|EG523232
EST:     TGAAATCTGCGTTAAAGCTTCTATCACCACTCCCAACAAGCTCGGAGACT                         GCCCTTTTTGCCAAAAGGTGTTACTGACAATGGAGGAGAAGAATGTTCCTT
genomic: TGAAATCTGCGTTAAAGCTTCTATCACCACTCCCAACAAGCTCGGAGACTgttagttttc ... ttgttgatagGCCCTTTTTGCCAAAAGGTGTTACTGACAATGGAGGAGAAGAATGTTCCTT
EST: gi|124877644|gb|EH957081.1|EH957081
EST:     TGAAATCTGCGTTAAAGCTTCTATCACCACTCCCAACAAGCTCGGAGACT                         GCCCTTTTTGC
genomic: TGAAATCTGCGTTAAAGCTTCTATCACCACTCCCAACAAGCTCGGAGACTgttagttttc ... ttgttgatagGCCCTTTTTGC
EST: gi|125036684|gb|EL108953.1|EL108953
EST:     TGAAATCTGCGTTAAAGCTTCTATCACCACTCCCAACAAGCTCGGAGACT                         GCCCTTTTTGCCAAAAGGTGTTACTGACAATGGAG
genomic: TGAAATCTGCGTTAAAGCTTCTATCACCACTCCCAACAAGCTCGGAGACTgttagttttc ... ttgttgatagGCCCTTTTTGCCAAAAGGTGTTACTGACAATGGAG
EST: gi|124720393|gb|EH811795.1|EH811795
EST:     AATCTGCGTTAAAGCTTCTATCACCACTCCCAACAAGCTCGGAGACT                         GCCCTTTTTGCCAAAAGGTGTTACTGACAATGGAGGAGAAGAATGATCCTT
genomic: AATCTGCGTTAAAGCTTCTATCACCACTCCCAACAAGCTCGGAGACTgttagttttc ... ttgttgatagGCCCTTTTTGCCAAAAGGTGTTACTGACAATGGAGGAGAAGAATGTTCCTT
EST: gi|124797390|gb|EH887069.1|EH887069
EST:     TGAAATCTGCGTTAAAGCTTCTATCACCACTCCCAACAAGCTCGGAGACT                         GCCCTTTTTTGCCAAAAGGTGTTACTG
genomic: TGAAATCTGCGTTAAAGCTTCTATCACCACTCCCAACAAGCTCGGAGACTgttagttttc ... ttgttgatagGCCCTTTTT-GCCAAAAGGTGTTACTG
EST: gi|116480635|gb|EG523227.1|EG523227
EST:     TGAAATCTGCGTTAAAGCTTCTATCACCACTCCCAACAAGCTCGGAGACT                         GCCCTTTTTGCCAAAAGGTGTTACT--CAATGGAGGAGAAGAATGTTCCTT
genomic: TGAAATCTGCGTTAAAGCTTCTATCACCACTCCCAACAAGCTCGGAGACTgttagttttc ... ttgttgatagGCCCTTTTTGCCAAAAGGTGTTACTGACAATGGAGGAGAAGAATGTTCCTT
EST: gi|116480636|gb|EG523228.1|EG523228
EST:     TGAAATCTGCGTTAAAGCTTCTATCACCACTCCCAACAAGCTCGGAGACT                         GCCCTTTTTGCCAAAAGGTGTTACTGACAATGGAGGAGAAGAATGTTCCTT
genomic: TGAAATCTGCGTTAAAGCTTCTATCACCACTCCCAACAAGCTCGGAGACTgttagttttc ... ttgttgatagGCCCTTTTTGCCAAAAGGTGTTACTGACAATGGAGGAGAAGAATGTTCCTT
EST: gi|125258689|gb|EL272774.1|EL272774
EST:     TGAAATCTGCGTTAAAGCTTCTATCACCACTCCCAACAAGCTCGGAGACT                         GCCCTTTTTGCCAAAAGGTGTTACTGACAATGGAGGAGAAGAATGTTCCTT
genomic: TGAAATCTGCGTTAAAGCTTCTATCACCACTCCCAACAAGCTCGGAGACTgttagttttc ... ttgttgatagGCCCTTTTTGCCAAAAGGTGTTACTGACAATGGAGGAGAAGAATGTTCCTT
EST: gi|116480645|gb|EG523237.1|EG523237
EST:     TGAAATCTGCGTTAAAGCTTCTATCACCACTCCCAACAAGCTCGGAGACT                         GCCCTTTTTGCCAAAAGGTGTTACTGACAATGGAGGAGAAGAATGTTCCTT
genomic: TGAAATCTGCGTTAAAGCTTCTATCACCACTCCCAACAAGCTCGGAGACTgttagttttc ... ttgttgatagGCCCTTTTTGCCAAAAGGTGTTACTGACAATGGAGGAGAAGAATGTTCCTT
EST: gi|116480622|gb|EG523214.1|EG523214
EST:     TGAAATCTGCGTTAAAGCTTCTATCACCACTCCCAACAAGCTCGGAGACT                         GCCCTTTTTGCCAAAAGGTGTTACTGACAATGGAGGAGAAGGATGTTCCTT
genomic: TGAAATCTGCGTTAAAGCTTCTATCACCACTCCCAACAAGCTCGGAGACTgttagttttc ... ttgttgatagGCCCTTTTTGCCAAAAGGTGTTACTGACAATGGAGGAGAAGAATGTTCCTT
EST: gi|116480638|gb|EG523230.1|EG523230
EST:     TGAAATCTGCGTTAAAGCTTCTATCACCACTCCCAACAAGCTCGGAGACT                         GCCCTTTTTGCCAAAAGGTGTTACTGACAATGGAGGAGAAGAATGTTCCTT
genomic: TGAAATCTGCGTTAAAGCTTCTATCACCACTCCCAACAAGCTCGGAGACTgttagttttc ... ttgttgatagGCCCTTTTTGCCAAAAGGTGTTACTGACAATGGAGGAGAAGAATGTTCCTT
EST: gi|47829198|gb|CK118882.1|CK118882
EST:     TGAAATCTGCGTTAAAGCTTCTATCACCACTCCCAACAAGCTCGGAGACT                         GCCCTTTTTGCCAAAAGGTGTTACTGACAATGGAGGAGAAGAATGTTCCTT
genomic: TGAAATCTGCGTTAAAGCTTCTATCACCACTCCCAACAAGCTCGGAGACTgttagttttc ... ttgttgatagGCCCTTTTTGCCAAAAGGTGTTACTGACAATGGAGGAGAAGAATGTTCCTT
EST: gi|116480643|gb|EG523235.1|EG523235
EST:     TGAAATCTGCGTTAAAGCTTCTATCACCACTCCCAACAAGCTCGGAGACT                         GCCCTTTTTGCCAAAAGGTGTTACTGACAATGGAGGAGAAGAATGTTCCTT
genomic: TGAAATCTGCGTTAAAGCTTCTATCACCACTCCCAACAAGCTCGGAGACTgttagttttc ... ttgttgatagGCCCTTTTTGCCAAAAGGTGTTACTGACAATGGAGGAGAAGAATGTTCCTT
EST: gi|116480631|gb|EG523223.1|EG523223
EST:     TGAAATCTGCGTTAAAGCTTCTATCACCACTCCCAACAAGCTCGGAGACT                         GCCCTTTTTGCCAAAAGGTGTTACT--CAATGGAGGAGAAGAATGTTCCTT
genomic: TGAAATCTGCGTTAAAGCTTCTATCACCACTCCCAACAAGCTCGGAGACTgttagttttc ... ttgttgatagGCCCTTTTTGCCAAAAGGTGTTACTGACAATGGAGGAGAAGAATGTTCCTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCGGGAAGGGTTGGCCGGTTTGTTACAATGGCGACGGCGGCGAGTCCTCTTGAAATCTGCGTTAAAGCTTCTATCACCACTCCCAACAAGCTCGGAGACTgttagttttctctccgtaaactttgaaatgttgatgattagctgcaatttgatccctctttcactcaatttcgaattggagatagataatttgtgttagc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tttctctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cctctttc