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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCAAGATGGTATTGGAGCGGTCTCGTTTGTGTACGACAAAGCAGGTCAGGTTGTAGAAGGAAAAGAACATGGAAAACCCACATTGCTTGGATTTGAAGAGgtatactttattagttcttgctttctctttcgtcgtttaaccgtatagtttattatcctcaattttgttcttttttgtgcttcttgaattgcag

Basic information

species Arabidopsis thaliana
transcript AT3G16460.1
intron # 5
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|124931670|gb|EL009006.1|EL009006
EST:     TGTAGAAGGAAAAGAACATGGAAAACCCACATTGCTTAGGATTTGAAGAG                         TTTGAGCTTGACTAT
genomic: TGTAGAAGGAAAAGAACATGGAAAACCCACATTGCTT-GGATTTGAAGAGgtatacttta ... tgaattgcagTTTGAGCTTGACTAT
EST: gi|116445286|gb|EG487878.1|EG487878
EST:     TTGTAGAAGGAAAAGAACATGGAAAACCCACATTGCTTGGATTTGAAGAG                         TTTGAGCTTGACTATCCAAGTGAATACATCACGGCAGTTGATGGCACCTAC
genomic: TTGTAGAAGGAAAAGAACATGGAAAACCCACATTGCTTGGATTTGAAGAGgtatacttta ... tgaattgcagTTTGAGCTTGACTATCCAAGTGAATACATCACGGCAGTTGATGGCACCTAC
EST: gi|124709030|gb|EH800432.1|EH800432
EST:     GAACATGGAAAACCCACATTGCTTGGATTTGAAGAG                         TTTGAGCTTGACTATCCAAGTGAATACATCACGG
genomic: GAACATGGAAAACCCACATTGCTTGGATTTGAAGAGgtatacttta ... tgaattgcagTTTGAGCTTGACTATCCAAGTGAATACATCACGG
EST: gi|116410592|gb|EG453184.1|EG453184
EST:     TTGTAGAAGGAAAAGAACATGGAAAACCCACATTGCTTGGATTTGAAGAG                         TTTGAGCTTGACTATCCAAGTGAATACATCACGGCAGTTGATGGCACCTAC
genomic: TTGTAGAAGGAAAAGAACATGGAAAACCCACATTGCTTGGATTTGAAGAGgtatacttta ... tgaattgcagTTTGAGCTTGACTATCCAAGTGAATACATCACGGCAGTTGATGGCACCTAC
EST: gi|125324298|gb|EL338378.1|EL338378
EST:     AAAACCCACATTGCTTGGATTTGAAGAG                         TTTGAGCTTGACTATCCAAGTGAATACATCACGGCAGTTGATGGCACCTAC
genomic: AAAACCCACATTGCTTGGATTTGAAGAGgtatacttta ... tgaattgcagTTTGAGCTTGACTATCCAAGTGAATACATCACGGCAGTTGATGGCACCTAC
EST: gi|116479659|gb|EG522251.1|EG522251
EST:     TTGTAGAAGGAAAAGAACATGGAAAACCCACATTGCTTGGATTTGAAGAG                         TTTGAGCTTGACTATCCAAGTGAATACATCACGGCAGTTGATGGCACCTAC
genomic: TTGTAGAAGGAAAAGAACATGGAAAACCCACATTGCTTGGATTTGAAGAGgtatacttta ... tgaattgcagTTTGAGCTTGACTATCCAAGTGAATACATCACGGCAGTTGATGGCACCTAC
EST: gi|116410591|gb|EG453183.1|EG453183
EST:     TTGTAGAAGGAAAAGAACATGGAAAACCCACATTGCTTGGATTTGAAGAG                         TTTGAGCTTGACTATCCAAGTGAATACATCACGGCAGTTGATGGCACCTAC
genomic: TTGTAGAAGGAAAAGAACATGGAAAACCCACATTGCTTGGATTTGAAGAGgtatacttta ... tgaattgcagTTTGAGCTTGACTATCCAAGTGAATACATCACGGCAGTTGATGGCACCTAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCAAGATGGTATTGGAGCGGTCTCGTTTGTGTACGACAAAGCAGGTCAGGTTGTAGAAGGAAAAGAACATGGAAAACCCACATTGCTTGGATTTGAAGAGgtatactttattagttcttgctttctctttcgtcgtttaaccgtatagtttattatcctcaattttgttcttttttgtgcttcttgaattgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA