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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGTTCACAAACGCAAAGTCCATATCTTCAGCTCAGTACTTTGGGGATCAGAACAAAAACGCTGATCTGGAATCAAAAGCTACTCTTCAGAAGTTTGCAgtaagtaacaacattcaccacaatctcaaaggaacatataacaacatcttccgattctaatgccattgttggaaattacag

Basic information

species Arabidopsis thaliana
transcript AT4G17890.2
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|125221775|gb|EL235860.1|EL235860
EST:     TCAAAAGCTACTCTTCAGAAGTTTGCA                         GGCTCAGCATCTATCTCAAGCGCTGTATTTTTACGGTCACGACCAAGATGA
genomic: TCAAAAGCTACTCTTCAGAAGTTTGCAgtaagtaaca ... gaaattacagGGCTCAGCATCTATCTCAAGCGCTG-ATTTTTACGGTCACGACCAAGATGA
EST: gi|124993529|gb|EL065798.1|EL065798
EST:     GCTACTCTTCAGAAGTTTGCA                         GGCTCAGCATCTATCTCAAGCGCTGATTTTTACGGTCACGACCAAGATGAT
genomic: GCTACTCTTCAGAAGTTTGCAgtaagtaaca ... gaaattacagGGCTCAGCATCTATCTCAAGCGCTGATTTTTACGGTCACGACCAAGATGAT
EST: gi|125185744|gb|EL200698.1|EL200698
EST:     CGCTGATCTGGAATC-AAAGCTACTCTTCAGAAGTTTGCA                         GGCTCAGCATCTATCTCAAGCGCTGATTTTTA
genomic: CGCTGATCTGGAATCAAAAGCTACTCTTCAGAAGTTTGCAgtaagtaaca ... gaaattacagGGCTCAGCATCTATCTCAAGCGCTGATTTTTA
EST: gi|124930657|gb|EL008086.1|EL008086
EST:     GAACAAAAACGCTGATCTGGTAATCAAAAGCTACTCTTCAGAAGTTTGCA                         GGCTCAGCATCTATCTCAAGCGCTGATTTTTACGGTCACG
genomic: GAACAAAAACGCTGATCTGG-AATCAAAAGCTACTCTTCAGAAGTTTGCAgtaagtaaca ... gaaattacagGGCTCAGCATCTATCTCAAGCGCTGATTTTTACGGTCACG

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAGTTCACAAACGCAAAGTCCATATCTTCAGCTCAGTACTTTGGGGATCAGAACAAAAACGCTGATCTGGAATCAAAAGCTACTCTTCAGAAGTTTGCAgtaagtaacaacattcaccacaatctcaaaggaacatataacaacatcttccgattctaatgccattgttggaaattacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT