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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttcgatgtatatatgtgttgattttgagtagatagatataagtgttgcttaggattcatatgctgatgatggcgatatttctgtggtgtttatcataggaagAAAGTTACACGCGAATGCAGAAGAGAGTTCCGATGATGTTACAGATCCACCAAAAGTTGAGGAGAAAATTGGTGGTCACGGTGGTTTATCGACGGATTCC

Basic information

species Arabidopsis thaliana
transcript AT4G24190.2
intron # 1
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|152033901|gb|BP819516.2|BP819516
EST:     TCCGTTTGGTTCCTTTTCTCGCTTCTGTTTCTTCTTCCAGATCAAGGAAG                         AAAGTTACACGCGAATGCAGAAGAGAGTTCCGATGATGTTACAGATCCACC
genomic: TCCGTTTTGTTCCTTTTCTCGCTTCTGTTTCTTCTTCCAGATCAAGGTACgtttcgatgt ... tcataggaagAAAGTTACACGCGAATGCAGAAGAGAGTTCCGATGATGTTACAGATCCACC
EST: gi|152034362|gb|BP826264.2|BP826264
EST:     TCGGTTTTGTTCCTTTTCTCGCTTCTGTTTCTTCTTCCAGATCAAGGAAG                         AAAGTTACACGCGAATGCAGAAGAGAGTT-CGATGATGTTACAGATCCACC
genomic: TCCGTTTTGTTCCTTTTCTCGCTTCTGTTTCTTCTTCCAGATCAAGGTACgtttcgatgt ... tcataggaagAAAGTTACACGCGAATGCAGAAGAGAGTTCCGATGATGTTACAGATCCACC
EST: gi|164164071|gb|ES017954.1|ES017954
EST:     TCCGTTTTGTTCCTTTTCTCGCTTCTGTTTCTTCTTCCAGATCAAGGAAG                         AAAGTTACACGCGAATGCAGAAGAGAGTTCCGATGATGTTAC
genomic: TCCGTTTTGTTCCTTTTCTCGCTTCTGTTTCTTCTTCCAGATCAAGGTACgtttcgatgt ... tcataggaagAAAGTTACACGCGAATGCAGAAGAGAGTTCCGATGATGTTAC
EST: gi|116483054|gb|EG525646.1|EG525646
EST:     TCCGTTTTGTTCCTTTTCTCGCTTCTGTTTCTTCTTCCAGATCAAGGAAG                         AAAGTTACACGCGAATGCAGAAGAGAGTTCCGATGATGTTACAGATCCACC
genomic: TCCGTTTTGTTCCTTTTCTCGCTTCTGTTTCTTCTTCCAGATCAAGGTACgtttcgatgt ... tcataggaagAAAGTTACACGCGAATGCAGAAGAGAGTTCCGATGATGTTACAGATCCACC
EST: gi|164142123|gb|EL978623.1|EL978623
EST:     TCCGTTTTGTTCCTTTTCTCGCTTCTGTTTCTTCTTCCAGATCAAGGAAG                         AAAGTTACACGCGAATGCAGAAGAGAGTTCCGA
genomic: TCCGTTTTGTTCCTTTTCTCGCTTCTGTTTCTTCTTCCAGATCAAGGTACgtttcgatgt ... tcataggaagAAAGTTACACGCGAATGCAGAAGAGAGTTCCGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttaggattcatatgctgatgatggcgatatttctgtggtgtttatcataggaagAAAGTTACACGCGAATGCAGAAGAGAGTTCCGATGATGTTACAGATCCACCAAAAGTTGAGGAGAAAATTGGTGGTCACGGTGGTTTATCGACGGATTCC
             tgctgat  putative branch site (score: 3)
                                         tttatcata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttcgatgtatatatgtgttgattttgagtagatagatataagtgttgcttaggattcatatgctgatgatggcgatatttctgtggtgtttatcataggaagAAAGTTACACGCGAATGCAGAAGAGAGTTCCGATGATGTTACAGATCCACCAAAAGTTGAGGAGAAAATTGGTGGTCACGGTGGTTTATCGACGGATTCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG