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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTTGAGCAAGACTTCGCTTAATGGTATCCCTCTTCTCGTTCTTGGGAACAAGATTGACAAACCTGGAGCTCTGTCCAAAGAAGCCTTAACAGACGAAATgtatagctctttatcttcatctaaaccatccagtaaaggcacaactttaggtcgatctgattatgtttgttatcgttgcag

Basic information

species Arabidopsis thaliana
transcript AT3G49870.1
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|164102671|gb|ES137172.1|ES137172
EST:     AAGAAGCCTTAACAGACGAAAT                         GGGACTTACATCACTTACAGATAGAGAAGTCTGCTGTTTCATGATATCATG
genomic: AAGAAGCCTTAACAGACGAAATgtatagctct ... atcgttgcagGGGACTTACATCACTTACAGATAGAGAAGTCTGCTGTTTCATGATATCATG
EST: gi|86072842|gb|DR368599.1|DR368599
EST:     AGATTGACAAACCTGGGAGCTCTGTCCAAAGAAGCCTTAACAGACGAAAN                         NNNACTTACATCACTTACAGATAGAGAAGTCTGCTGTTTCATGATATCATG
genomic: AGATTGACAAACCTGG-AGCTCTGTCCAAAGAAGCCTTAACAGACGAAATgtatagctct ... atcgttgcagGGGACTTACATCACTTACAGATAGAGAAGTCTGCTGTTTCATGATATCATG
EST: gi|124960575|gb|EL035234.1|EL035234
EST:     AAGATTGACAAACCTGGAGCTCTGTCCAAAGAAGCCTTAACAGACGAAAT                         GGGACTTACATCACTTACAGATAGAGAAGTCTGCTGTTT
genomic: AAGATTGACAAACCTGGAGCTCTGTCCAAAGAAGCCTTAACAGACGAAATgtatagctct ... atcgttgcagGGGACTTACATCACTTACAGATAGAGAAGTCTGCTGTTT
EST: gi|124779437|gb|EH869380.1|EH869380
EST:     AAGATTGACAAACCTGGAGCTCTGTCCAAAGAAGCCTTAACAGACGAAAT                         GGGACTTACATCACTTACAGATAGAGAAGTCTGCTGTTTCA
genomic: AAGATTGACAAACCTGGAGCTCTGTCCAAAGAAGCCTTAACAGACGAAATgtatagctct ... atcgttgcagGGGACTTACATCACTTACAGATAGAGAAGTCTGCTGTTTCA
EST: gi|164118658|gb|ES110986.1|ES110986
EST:     AAGATTGACAAACCTGGAGCTCTGTCCAAAGAAGCCTTAACAGACGAAAT                         GGGACTTACATCACTT
genomic: AAGATTGACAAACCTGGAGCTCTGTCCAAAGAAGCCTTAACAGACGAAATgtatagctct ... atcgttgcagGGGACTTACATCACTT
EST: gi|125322069|gb|EL336154.1|EL336154
EST:     ACAAACCTGGAGCTCTGTCCAAAGAAGCCTTAACAGACGAAAT                         GGGACTTACATCACTTACAGATAGAGAAGTCTGCTGTTTCATGATATCATG
genomic: ACAAACCTGGAGCTCTGTCCAAAGAAGCCTTAACAGACGAAATgtatagctct ... atcgttgcagGGGACTTACATCACTTACAGATAGAGAAGTCTGCTGTTTCATGATATCATG
EST: gi|124869274|gb|EH953711.1|EH953711
EST:     AAGATTGACAAACCTGGAGCTCTGTCCAAAGAAGCCTTAACAGACGAAAT                         GGGACTTACATCACT
genomic: AAGATTGACAAACCTGGAGCTCTGTCCAAAGAAGCCTTAACAGACGAAATgtatagctct ... atcgttgcagGGGACTTACATCACT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGTTGAGCAAGACTTCGCTTAATGGTATCCCTCTTCTCGTTCTTGGGAACAAGATTGACAAACCTGGAGCTCTGTCCAAAGAAGCCTTAACAGACGAAATgtatagctctttatcttcatctaaaccatccagtaaaggcacaactttaggtcgatctgattatgtttgttatcgttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC