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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcactcatgttcgtagaaaacgtattttgctccaatgcacttccagtctctctttgtggtgcatctaacatgattttcccacaaggaatttgttgatcaagtttcatcttttggtggatagGAACTGTCAACGTATTACAAACGTGCGTACCTTCTTCCTAGGATCAACAATGAAATCCCCCATGTTCAAAACAAAAGCTTCAAGAAAAGATTCCAGCAGC

Basic information

species Physcomitrella patens
transcript PP1S62_223V6.1
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|162278090|gb|FC453909.1|FC453909
EST:     AGCAATTTCGCACCAAGTGGTTACTTCAAAATCCCCTCT                         GAACTGTCAACGTATTACAAACGTGCGTACCTTCTTCCTAGGATCAACAAT
genomic: AGCAATTTCGCACCAAGTGGTTACTTCAAAATCCCCTCTgtaagtcact ... tggtggatagGAACTGTCAACGTATTACAAACGTGCGTACCTTCTTCCTAGGATCAACAAT
EST: gi|162193494|gb|FC370397.1|FC370397
EST:     AGCAATTTCGCACCAAGTGGTTACTTCAAAATCCCCTCT                         GAACTGTCAACGTATTACAAACGTGCGTACCTTCTTCCTAGGATCAACAAT
genomic: AGCAATTTCGCACCAAGTGGTTACTTCAAAATCCCCTCTgtaagtcact ... tggtggatagGAACTGTCAACGTATTACAAACGTGCGTACCTTCTTCCTAGGATCAACAAT
EST: gi|100401210|gb|BY990887.1|BY990887
EST:     AGCAATTTCGCACCAAGTGGTTACTTCAAAATCCCCTCT                         GAACTGTNCA-CGTATTACAAACGTGCGTACCTTCTTCCTAGGATCAACAA
genomic: AGCAATTTCGCACCAAGTGGTTACTTCAAAATCCCCTCTgtaagtcact ... tggtggatagGAACTGT-CAACGTATTACAAACGTGCGTACCTTCTTCCTAGGATCAACAA
EST: gi|67575266|gb|BJ948090.1|BJ948090
EST:     AGCAATTTCGCACCAAGTGGTTACTTCAAAATCCCCTCT                         GAACTGTNCA-CGTATTACAAACGTGCGTACCTTCTTCCTAGGATCAACAA
genomic: AGCAATTTCGCACCAAGTGGTTACTTCAAAATCCCCTCTgtaagtcact ... tggtggatagGAACTGT-CAACGTATTACAAACGTGCGTACCTTCTTCCTAGGATCAACAA
EST: gi|100390994|gb|BY953004.1|BY953004
EST:     AGCAATTTCGCACCAAGTGGTTACTTCAAAATCCCCTCT                         GAACTGTCAACGTATTACAAACGTGCGTACCTTCTTCCTAGGATCAACAAT
genomic: AGCAATTTCGCACCAAGTGGTTACTTCAAAATCCCCTCTgtaagtcact ... tggtggatagGAACTGTCAACGTATTACAAACGTGCGTACCTTCTTCCTAGGATCAACAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacatgattttcccacaaggaatttgttgatcaagtttcatcttttggtggatagGAACTGTCAACGTATTACAAACGTGCGTACCTTCTTCCTAGGATCAACAATGAAATCCCCCATGTTCAAAACAAAAGCTTCAAGAAAAGATTCCAGCAGC
                                   tttcatctttt  CT-rich tract
                    aatttgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtcactcatgttcgtagaaaacgtattttgctccaatgcacttccagtctctctttgtggtgcatctaacatgattttcccacaaggaatttgttgatcaagtttcatcttttggtggatagGAACTGTCAACGTATTACAAACGTGCGTACCTTCTTCCTAGGATCAACAATGAAATCCCCCATGTTCAAAACAAAAGCTTCAAGAAAAGATTCCAGCAGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA