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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTTTTGAAGGAACATCTGGGATTGACAACAAGTTTACCACCGTGCAATTCACAGGAGAGgtgttactataaaagccttctcctcttttaagcttttggcagattagttaaaattttggttggaagttttctaaaaactaagaggatgcttggttacagtttttttcttgttctttttttgtcattatctgttattggtgtgtgttttcag

Basic information

species Arabidopsis thaliana
transcript AT1G20260.1
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|116471926|gb|EG514518.1|EG514518
EST:     GAACATCTGGGATTGACAACAAGTTTACCACCGTGCAATTCACAGGAGAG                         GTACTGAAAACGCCTGTGTCATTGGACATGCTTGGCCGCATATTTAACGGC
genomic: GAACATCTGGGATTGACAACAAGTTTACCACCGTGCAATTCACAGGAGAGgtgttactat ... gtgttttcagGTACTGAAAACGCCTGTGTCATTGGACATGCTTGGCCGCATATTTAACGGC
EST: gi|164205189|gb|ES189234.1|ES189234
EST:     GAACATCTGGGATTGACAACAAGTTTACCACCGTGCAATTCACAGGAGAG                         GTACTGAAAACGCCTGTATCATTGGAC
genomic: GAACATCTGGGATTGACAACAAGTTTACCACCGTGCAATTCACAGGAGAGgtgttactat ... gtgttttcagGTACTGAAAACGCCTGTGTCATTGGAC
EST: gi|116483049|gb|EG525641.1|EG525641
EST:     GAACATCTGGGATTGACAACAAGTTTACCACCGTGCAATTCACAGGAGAG                         GTACTGAAAACGCCTGTGTCATTGGACATGCTTGGCCGCATATTTAACGGC
genomic: GAACATCTGGGATTGACAACAAGTTTACCACCGTGCAATTCACAGGAGAGgtgttactat ... gtgttttcagGTACTGAAAACGCCTGTGTCATTGGACATGCTTGGCCGCATATTTAACGGC
EST: gi|116424900|gb|EG467492.1|EG467492
EST:     GAACATCTGGGATTGACAACAAGTTTACCACCGTGCAATTCACAGGAGAG                         GTACTGAAAACGCCTGTGTCATTGGACATGCTTGGCCGCATATTTAACGGC
genomic: GAACATCTGGGATTGACAACAAGTTTACCACCGTGCAATTCACAGGAGAGgtgttactat ... gtgttttcagGTACTGAAAACGCCTGTGTCATTGGACATGCTTGGCCGCATATTTAACGGC
EST: gi|125117790|gb|EL166776.1|EL166776
EST:     GAACATCTGGGATTGACAACAAGTTTACCACCGTGCAATTCACAGGAGAG                         GTACTGAAAACGCCTGTGTCATTGGACATGCTTGGCCGCATATT
genomic: GAACATCTGGGATTGACAACAAGTTTACCACCGTGCAATTCACAGGAGAGgtgttactat ... gtgttttcagGTACTGAAAACGCCTGTGTCATTGGACATGCTTGGCCGCATATT
EST: gi|152038085|gb|BP807684.2|BP807684
EST:     GAACATCTGGGATTGACAACAAGTTCACCACCGTGCAATTCACAGGAGAG                         GTACTGAAAACGCCTGTGTCATTGGACATGCTGGGCCGCATATTTAACGGC
genomic: GAACATCTGGGATTGACAACAAGTTTACCACCGTGCAATTCACAGGAGAGgtgttactat ... gtgttttcagGTACTGAAAACGCCTGTGTCATTGGACATGCTTGGCCGCATATTTAACGGC
EST: gi|125218933|gb|EL233017.1|EL233017
EST:     CCGTGCAATTCACAGGAGAG                         GTACTGAAAACGCCTGTGTCATTGGACATGCTTGGCCGCATATTTAACGGC
genomic: CCGTGCAATTCACAGGAGAGgtgttactat ... gtgttttcagGTACTGAAAACGCCTGTGTCATTGGACATGCTTGGCCGCATATTTAACGGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTTTTGAAGGAACATCTGGGATTGACAACAAGTTTACCACCGTGCAATTCACAGGAGAGgtgttactataaaagccttctcctcttttaagcttttggcagattagttaaaattttggttggaagttttctaaaaactaagaggatgcttggttacagtttttttcttgttctttttttgtcattatctgttattggtgtgtgttttcag

- - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA