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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtatcttccggctgagacatctgaatctactgctactatggtattagactatgtgaattcgcttttgtaacctttggctgtttttttttggtgcagCTCCAAGGTACTGATAATTTATTAGAGACCTTATGAATTCCATGAAGCCCTGAAGCCTCAAGCCTGAGTTGGTATCGGTTTACGCGCTGAATCAACTGAG

Basic information

species Arabidopsis thaliana
transcript AT2G46230.1
intron # 8
splice site 3'
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|86084884|gb|DR380643.1|DR380643
EST:     TAATCGCAAGTACTCAATAGAGAAGTTGCCTGAAGCTACACTTGGTGGAG                         CTCCAAGGTACTGATAATTTATTAGAGACCTTATGAATTCCATGAAGCCCT
genomic: TAATCGCAAGTACTCAATAGAGAAGTTGCCTGAAGCTACACTTGGTGGAGgtatgtatct ... tttggtgcagCTCCAAGGTACTGATAATTTATTAGAGACCTTATGAATTCCATGAAGCCCT
EST: gi|47829180|gb|CK118864.1|CK118864
EST:     TAATCGCAAGTACTCAATAGAGAAGTTGCCTGAAGCTACACTTGGTGGAG                         CTCCAAGGTACTGATAATTTATTAGAGACCTTATGAATTCCATGAAGCCCT
genomic: TAATCGCAAGTACTCAATAGAGAAGTTGCCTGAAGCTACACTTGGTGGAGgtatgtatct ... tttggtgcagCTCCAAGGTACTGATAATTTATTAGAGACCTTATGAATTCCATGAAGCCCT
EST: gi|86080730|gb|DR376487.1|DR376487
EST:     TAATCGCAAGTACTCAATAGAGAAGTTGCCTGAAGCTACACTTGGTGGAG                         CTCCAAGGTACTGATAATTTATTAGAGACCTTATGAATTCCATGAAGCCCT
genomic: TAATCGCAAGTACTCAATAGAGAAGTTGCCTGAAGCTACACTTGGTGGAGgtatgtatct ... tttggtgcagCTCCAAGGTACTGATAATTTATTAGAGACCTTATGAATTCCATGAAGCCCT
EST: gi|47828370|gb|CK118054.1|CK118054
EST:     TAATCGCAAGTACTCAATAGAGAAGTTGCCTGAAGCTACACTTGGTGGAG                         CTCCAAGGTACTGATAATTTATTAGAGACCTTATGAATTCCATGAAGCCCT
genomic: TAATCGCAAGTACTCAATAGAGAAGTTGCCTGAAGCTACACTTGGTGGAGgtatgtatct ... tttggtgcagCTCCAAGGTACTGATAATTTATTAGAGACCTTATGAATTCCATGAAGCCCT
EST: gi|164231692|gb|EL998571.1|EL998571
EST:     TAATCGCAAGTACTCAATAGAGAAGTTGCCTGAAGCTACACTTGGTGGAG                         CTCCAAGGTACTGATAATTTAT
genomic: TAATCGCAAGTACTCAATAGAGAAGTTGCCTGAAGCTACACTTGGTGGAGgtatgtatct ... tttggtgcagCTCCAAGGTACTGATAATTTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattagactatgtgaattcgcttttgtaacctttggctgtttttttttggtgcagCTCCAAGGTACTGATAATTTATTAGAGACCTTATGAATTCCATGAAGCCCTGAAGCCTCAAGCCTGAGTTGGTATCGGTTTACGCGCTGAATCAACTGAG
                       ttgtaac  putative branch site (score: 2)
                                    ctgttttttttt  putative PPT
                                     tgttttttttt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgtatcttccggctgagacatctgaatctactgctactatggtattagactatgtgaattcgcttttgtaacctttggctgtttttttttggtgcagCTCCAAGGTACTGATAATTTATTAGAGACCTTATGAATTCCATGAAGCCCTGAAGCCTCAAGCCTGAGTTGGTATCGGTTTACGCGCTGAATCAACTGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC