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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatcttatctttctataagttgttgttgtttctatcgatttctactcttgtcttacttctcaccattctctctgtagGCTGAGTTTCAGAATGTTATCGATTCTCTATCGACGCTCGGTAAACCTTCAAGCTTATCTGCTTCTGTTTCTTGGAATCCGATGAAAGGTGAAGAGCAAG

Basic information

species Arabidopsis thaliana
transcript AT1G64350.1
intron # 3
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|116480252|gb|EG522844.1|EG522844
EST:     GGGTTTTTGAGCTCTTGAATCCATTGGAGCTAAAGAATTGGCAACTTCAG                         GCTGAGTTTCAGAATGTTATCGATTCTCTATCGACGCTCGGTAAACCTTCA
genomic: GGGTTTTTGAGCTCTTGAATCCATTGGAGCTAAAGAATTGGCAACTTCAGgtatcttatc ... ctctctgtagGCTGAGTTTCAGAATGTTATCGATTCTCTATCGACGCTCGGTAAACCTTCA
EST: gi|86044889|gb|DR340644.1|DR340644
EST:     AATCCATTGGAGCTAAAGAATTGGCAACTTCAG                         GCTGAGTTTCAGAATGTTATCGATTCTCTATCGACGCTCGGTAAACCTTCA
genomic: AATCCATTGGAGCTAAAGAATTGGCAACTTCAGgtatcttatc ... ctctctgtagGCTGAGTTTCAGAATGTTATCGATTCTCTATCGACGCTCGGTAAACCTTCA
EST: gi|86044893|gb|DR340648.1|DR340648
EST:     GGGTTTTTGAGCTCTTGAATCCATTGGAGCTAAAGAATTGGCAACTTCAG                         GCTGAGTTTCAGAATGTTATCGATTCTCTATCGACGCTCGGTAAACCTTCA
genomic: GGGTTTTTGAGCTCTTGAATCCATTGGAGCTAAAGAATTGGCAACTTCAGgtatcttatc ... ctctctgtagGCTGAGTTTCAGAATGTTATCGATTCTCTATCGACGCTCGGTAAACCTTCA
EST: gi|86044886|gb|DR340641.1|DR340641
EST:     GGGTTTTTGAGCTCTTGAATCCATTGGAGCTAAAGAATTGGCAACTTCAG                         GCTGAGTTTCAGAATGTTATCGATTCTCTATCGACGCTCGGTAAACCTTCA
genomic: GGGTTTTTGAGCTCTTGAATCCATTGGAGCTAAAGAATTGGCAACTTCAGgtatcttatc ... ctctctgtagGCTGAGTTTCAGAATGTTATCGATTCTCTATCGACGCTCGGTAAACCTTCA
EST: gi|86044884|gb|DR340639.1|DR340639
EST:     GGGTTTTTGAGCTCTTGAATCCATTGGAGCTAAAGAATTGGCAACTTCAG                         GCTGAGTTTCAGAATGTTATCGATTCTCTATCGACGCTCGGTAAACCTTCA
genomic: GGGTTTTTGAGCTCTTGAATCCATTGGAGCTAAAGAATTGGCAACTTCAGgtatcttatc ... ctctctgtagGCTGAGTTTCAGAATGTTATCGATTCTCTATCGACGCTCGGTAAACCTTCA
EST: gi|86044891|gb|DR340646.1|DR340646
EST:     GGGTTTTTGAGCTCTTGAATCCATTGGAGCTAAAGAATTGGCAACTTCAG                         GCTGAGTTTCAGAATGTTATCGATTCTCTATCGACGCTCGGTAAACCTTCA
genomic: GGGTTTTTGAGCTCTTGAATCCATTGGAGCTAAAGAATTGGCAACTTCAGgtatcttatc ... ctctctgtagGCTGAGTTTCAGAATGTTATCGATTCTCTATCGACGCTCGGTAAACCTTCA
EST: gi|116457542|gb|EG500134.1|EG500134
EST:     GGGTTTTTGAGCTCTTGAATCCATTGGAGCTAAAGAATTGGCAACTTCAG                         GCTGAGTTTCAGAATGTTATCGATTCTCTATCGACGCTCGGTAAACCTTCA
genomic: GGGTTTTTGAGCTCTTGAATCCATTGGAGCTAAAGAATTGGCAACTTCAGgtatcttatc ... ctctctgtagGCTGAGTTTCAGAATGTTATCGATTCTCTATCGACGCTCGGTAAACCTTCA
EST: gi|86044879|gb|DR340634.1|DR340634
EST:     GGGTTTTTGAGCTCTTGAATCCATTGGAGCTAAAGAATTGGCAACTTCAG                         GCTGAGTTTCAGAATGTTATCGATTCTCTATCGACGCTCGGTAAACCTTCA
genomic: GGGTTTTTGAGCTCTTGAATCCATTGGAGCTAAAGAATTGGCAACTTCAGgtatcttatc ... ctctctgtagGCTGAGTTTCAGAATGTTATCGATTCTCTATCGACGCTCGGTAAACCTTCA
EST: gi|86044877|gb|DR340632.1|DR340632
EST:     GGGTTTTTGAGCTCTTGAATCCATTGGAGCTAAAGAATTGGCAACTTCAG                         GCTGAGTTTCAGAATGTTATCGATTCTCTATCGACGCTCGGTAAACCTTCA
genomic: GGGTTTTTGAGCTCTTGAATCCATTGGAGCTAAAGAATTGGCAACTTCAGgtatcttatc ... ctctctgtagGCTGAGTTTCAGAATGTTATCGATTCTCTATCGACGCTCGGTAAACCTTCA
EST: gi|124833161|gb|EH917600.1|EH917600
EST:     GGTTTTTGAGCTCTTGAATCCATTGGAGCTAAAGAATTGGACAACTTCAG                         GCTGAGTTTCAGAATGTT
genomic: GGTTTTTGAGCTCTTGAATCCATTGGAGCTAAAGAATTGG-CAACTTCAGgtatcttatc ... ctctctgtagGCTGAGTTTCAGAATGTT
EST: gi|116430790|gb|EG473382.1|EG473382
EST:     GGGTTTTTGAGCTCTTGAATCCATTGGAGCTAAAGAATTGGCAACTTCAG                         GCTGAGTTTCAGAATGTTATCGATTCTCTATCGACGCTCGGTAAACCTTCA
genomic: GGGTTTTTGAGCTCTTGAATCCATTGGAGCTAAAGAATTGGCAACTTCAGgtatcttatc ... ctctctgtagGCTGAGTTTCAGAATGTTATCGATTCTCTATCGACGCTCGGTAAACCTTCA
EST: gi|116430791|gb|EG473383.1|EG473383
EST:     GGGTTTTTGAGCTCTTGAATCCATTGGAGCTAAAGAATTGGCAACTTCAG                         GCTGAGTTTCAGAATGTTATCGATTCTCTATCGACGCTCGGTAAACCTTCA
genomic: GGGTTTTTGAGCTCTTGAATCCATTGGAGCTAAAGAATTGGCAACTTCAGgtatcttatc ... ctctctgtagGCTGAGTTTCAGAATGTTATCGATTCTCTATCGACGCTCGGTAAACCTTCA
EST: gi|86044878|gb|DR340633.1|DR340633
EST:     GGGTTTTTGAGCTCTTGAATCCATTGGAGCTAAAGAATTGGCAACTTCAG                         GCTGAGTTTCAGAATGTTATCGATTCTCTATCGACGCTCGGTAAACCTTCA
genomic: GGGTTTTTGAGCTCTTGAATCCATTGGAGCTAAAGAATTGGCAACTTCAGgtatcttatc ... ctctctgtagGCTGAGTTTCAGAATGTTATCGATTCTCTATCGACGCTCGGTAAACCTTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgttgtttctatcgatttctactcttgtcttacttctcaccattctctctgtagGCTGAGTTTCAGAATGTTATCGATTCTCTATCGACGCTCGGTAAACCTTCAAGCTTATCTGCTTCTGTTTCTTGGAATCCGATGAAAGGTGAAGAGCAAG
                                  ttctcac  putative branch site (score: 2)
                tttctactcttgtctt  CT-rich tract
      tttctat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatcttatctttctataagttgttgttgtttctatcgatttctactcttgtcttacttctcaccattctctctgtagGCTGAGTTTCAGAATGTTATCGATTCTCTATCGACGCTCGGTAAACCTTCAAGCTTATCTGCTTCTGTTTCTTGGAATCCGATGAAAGGTGAAGAGCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG