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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggtgccctcaaactactgagtactgactgtatctttgtttcctgttatcgttctggtttagtgttcatgtgcaagaattattactgtttgaacagcctttttagtctctgttttatttgaatcttctctggtttggaattcatagcattctaactccattcccctggcttgtcttggatttttctagTCTGGTTCGAGAAAAGAATTGACTGGGAAGATGGCACAACCATGTTGAGATTGTAGCTGTTGATGGCTGTTTATGAAACTGTAGATGATCGATGCTGTTT

Basic information

species Arabidopsis thaliana
transcript AT5G64200.1
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|125057800|gb|EL126839.1|EL126839
EST:     TAAGCACTGGAACGTCTACCCTCTGTAGTATTACTTGCTTTCC                         TCTGGTTCGAGAAAAGAATTGACTGGGAAGATGG
genomic: TAAGCACTGGAACGTCTACCCTCTGTAGTATTACTTGCTTTCCgtaggtgccc ... atttttctagTCTGGTTCGAGAAAAGAATTGACTGGGAAGATGG
EST: gi|116476724|gb|EG519316.1|EG519316
EST:     TCATCATTAAGCACTGGAACGTCTACCCTCTGTAGTATTACTTGCTTTCC                         TCTGGTTCGAGAAAAGAATTAACTGGGAAGATGGCACAACCATGTTGAGAT
genomic: TCATCATTAAGCACTGGAACGTCTACCCTCTGTAGTATTACTTGCTTTCCgtaggtgccc ... atttttctagTCTGGTTCGAGAAAAGAATTGACTGGGAAGATGGCACAACCATGTTGAGAT
EST: gi|116476723|gb|EG519315.1|EG519315
EST:     TCATCATTAAGCACTGGAACGTCTACCCTCTGTAGTATTACTTGCTTTCC                         TCTGGTTCGAGAAAAGAATTAACTGGGAAGATGGCACAACCATGTTGAGAT
genomic: TCATCATTAAGCACTGGAACGTCTACCCTCTGTAGTATTACTTGCTTTCCgtaggtgccc ... atttttctagTCTGGTTCGAGAAAAGAATTGACTGGGAAGATGGCACAACCATGTTGAGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttggaattcatagcattctaactccattcccctggcttgtcttggatttttctagTCTGGTTCGAGAAAAGAATTGACTGGGAAGATGGCACAACCATGTTGAGATTGTAGCTGTTGATGGCTGTTTATGAAACTGTAGATGATCGATGCTGTTT
               ttctaac  putative branch site (score: 1)
                                              tttttct  putative PPT
                                             atttttcta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaggtgccctcaaactactgagtactgactgtatctttgtttcctgttatcgttctggtttagtgttcatgtgcaagaattattactgtttgaacagcctttttagtctctgttttatttgaatcttctctggtttggaattcatagcattctaactccattcccctggcttgtcttggatttttctagTCTGGTTCGAGAAAAGAATTGACTGGGAAGATGGCACAACCATGTTGAGATTGTAGCTGTTGATGGCTGTTTATGAAACTGTAGATGATCGATGCTGTTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT