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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAATGGGCCTAAGCTTCGAGAAGCTTCTGAAAGAACAGGACGCGAGATTCTTCTCTGGACTCGTAGAGGCAGCTCGCTTCGTGCTCTGCTTGTCATCACTgtaagtagaatgattgaacctaattagagactgaatttcattttcaatctagccttccattatcttcaattcgatttcctcaagtaaattaacgtattgt...

Basic information

species Arabidopsis thaliana
transcript AT5G16550.1
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|86033435|gb|DR329188.1|DR329188
EST:     TTCTCTGGACTCGTAGAGGCAGCTCGCTTCGTGCTCTGCTTGTYATCACT                         ATGGGAACAATAGTTCTTTTGAC
genomic: TTCTCTGGACTCGTAGAGGCAGCTCGCTTCGTGCTCTGCTTGTCATCACTgtaagtagaa ... gttgttgcagATGGGAACAATAGTTCTTTTGAC
EST: gi|86033438|gb|DR329191.1|DR329191
EST:     TTCTCTGGACTCGTAGAGGCAGCTCGCTTCGTGCTCTGCTTGTCATCACT                         ATGGGAACAATAGTTCTTTTGACAACAATGGCTTTGGTTGTATTCACACTC
genomic: TTCTCTGGACTCGTAGAGGCAGCTCGCTTCGTGCTCTGCTTGTCATCACTgtaagtagaa ... gttgttgcagATGGGAACAATAGTTCTTTTGACAACAATGGCTTTGGTTGTATTCACACTC
EST: gi|86033423|gb|DR329176.1|DR329176
EST:     TTCTCTGGACTCGTAGAGGCAGCTCGCTTCGTGCTCTGCTTGTCATCACT                         ATGGGAACAATAGTTCTTTTGACAACAATGGCTTTGGTTGTATTCACACTC
genomic: TTCTCTGGACTCGTAGAGGCAGCTCGCTTCGTGCTCTGCTTGTCATCACTgtaagtagaa ... gttgttgcagATGGGAACAATAGTTCTTTTGACAACAATGGCTTTGGTTGTATTCACACTC
EST: gi|86033429|gb|DR329182.1|DR329182
EST:     TTCTCTGGACTCGTAGAGGCAGCTCGCTTCGTGCTCTGCTTGTCATCACT                         ATGGGAACAATAGTTCTTTTGACAACAATGGCTTTGGTTGTATTCACACTC
genomic: TTCTCTGGACTCGTAGAGGCAGCTCGCTTCGTGCTCTGCTTGTCATCACTgtaagtagaa ... gttgttgcagATGGGAACAATAGTTCTTTTGACAACAATGGCTTTGGTTGTATTCACACTC
EST: gi|86033425|gb|DR329178.1|DR329178
EST:     TTCTCTGGACTCGTAGARGCAGCTCGCTTCGTGCTCTGCTTGTCATCACT                         ATGGGAACAATAGTTCTTTTGACAACAATGGCTTTGGTTGTATTCACACTC
genomic: TTCTCTGGACTCGTAGAGGCAGCTCGCTTCGTGCTCTGCTTGTCATCACTgtaagtagaa ... gttgttgcagATGGGAACAATAGTTCTTTTGACAACAATGGCTTTGGTTGTATTCACACTC
EST: gi|86033431|gb|DR329184.1|DR329184
EST:     TTCTCTGGACTCGTAGAGGCAGCTCGCTTCGTGCTCTGCTTGTCATCACT                         ATGGGAACAATAGTTCTTTTGACAACAATGGCTTTGGTTGTATTCACACTC
genomic: TTCTCTGGACTCGTAGAGGCAGCTCGCTTCGTGCTCTGCTTGTCATCACTgtaagtagaa ... gttgttgcagATGGGAACAATAGTTCTTTTGACAACAATGGCTTTGGTTGTATTCACACTC
EST: gi|86033434|gb|DR329187.1|DR329187
EST:     TTCTCTGGACTCGTAGAGGCAGCTCGCTTCGTGCTCTGCTTGTCATCACT                         ATGGGAACAATAGTTCTTTTGACAAC
genomic: TTCTCTGGACTCGTAGAGGCAGCTCGCTTCGTGCTCTGCTTGTCATCACTgtaagtagaa ... gttgttgcagATGGGAACAATAGTTCTTTTGACAAC
EST: gi|86033422|gb|DR329175.1|DR329175
EST:     TTCTCTGGACTCGTAGAG-CAGCTCGCTTCGTGCTCTGCTTGTCATCACT                         ATGGGAACAATAGTTCTTTTGACAACAATGGCTTTGGTTGTATTCACACTC
genomic: TTCTCTGGACTCGTAGAGGCAGCTCGCTTCGTGCTCTGCTTGTCATCACTgtaagtagaa ... gttgttgcagATGGGAACAATAGTTCTTTTGACAACAATGGCTTTGGTTGTATTCACACTC
EST: gi|86033433|gb|DR329186.1|DR329186
EST:     TTCTCTGGACTCGTAGAGGCAGCTCGCTTCGTGCTCTGCTTGTCATCACT                         ATGGGAACAATAGTTCTTTTGACAACAATGGCTTTGGTT
genomic: TTCTCTGGACTCGTAGAGGCAGCTCGCTTCGTGCTCTGCTTGTCATCACTgtaagtagaa ... gttgttgcagATGGGAACAATAGTTCTTTTGACAACAATGGCTTTGGTT
EST: gi|86033430|gb|DR329183.1|DR329183
EST:     TTCTCTGGACTCGTAGAGGCAGCTCGCTTCGTGCTCTGCTTGTCATCACT                         AGTGGGAACAATAGTTCTTTTGACAACAATGGCTTTGGTTGTATTCACACT
genomic: TTCTCTGGACTCGTAGAGGCAGCTCGCTTCGTGCTCTGCTTGTCATCACTgtaagtagaa ... gttgttgcagA-TGGGAACAATAGTTCTTTTGACAACAATGGCTTTGGTTGTATTCACACT
EST: gi|86033436|gb|DR329189.1|DR329189
EST:     TTCTCTGGACTCGTAGAG-CAGCTCGCTTCGTGCTCTGCTNGTCATCACT                         ATGGGAACAATAGTTCTTTTGACAACAATGGCTTTGGTTGTATTCACACTC
genomic: TTCTCTGGACTCGTAGAGGCAGCTCGCTTCGTGCTCTGCTTGTCATCACTgtaagtagaa ... gttgttgcagATGGGAACAATAGTTCTTTTGACAACAATGGCTTTGGTTGTATTCACACTC
EST: gi|86033424|gb|DR329177.1|DR329177
EST:     TTCTCTGGACTCGTAGAGGCAGCTCGCTTCGTGCTCTGCTTGTCATCACT                         ATGGGAACAATAGTTCTTTTGACAACAATGGCTTTGGTTGTATTCACACTC
genomic: TTCTCTGGACTCGTAGAGGCAGCTCGCTTCGTGCTCTGCTTGTCATCACTgtaagtagaa ... gttgttgcagATGGGAACAATAGTTCTTTTGACAACAATGGCTTTGGTTGTATTCACACTC
EST: gi|86033427|gb|DR329180.1|DR329180
EST:     TTCTCTGGACTCGTAGAGGCAGCTCGCTTCGTGCTCTGCTTGTCATCACT                         ATGGGAACAATAGTTCTTTTGACAACAATGGCTTTGGTTGTATTCACACTC
genomic: TTCTCTGGACTCGTAGAGGCAGCTCGCTTCGTGCTCTGCTTGTCATCACTgtaagtagaa ... gttgttgcagATGGGAACAATAGTTCTTTTGACAACAATGGCTTTGGTTGTATTCACACTC
EST: gi|86033437|gb|DR329190.1|DR329190
EST:     TTCTCTGGACTCGTAGARGCAGCTCGCTTCGTGCTCTGCTTGTCATCACT                         ATGGGAACAATAG
genomic: TTCTCTGGACTCGTAGAGGCAGCTCGCTTCGTGCTCTGCTTGTCATCACTgtaagtagaa ... gttgttgcagATGGGAACAATAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAATGGGCCTAAGCTTCGAGAAGCTTCTGAAAGAACAGGACGCGAGATTCTTCTCTGGACTCGTAGAGGCAGCTCGCTTCGTGCTCTGCTTGTCATCACTgtaagtagaatgattgaacctaattagagactgaatttcattttcaatctagccttccattatcttcaattcgatttcctcaagtaaattaacgtattgt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccttccat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caagtaaa