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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGTCCGGAAACCATCCCCAACGATACAGCAGAAAAAACTGCTTTCTTATTCAAGTGCAAAGCTACCTTGGAGCTCACGCAgtaagcattcatgttaatctgcttaaatttgtgtgtgcagcttcactgacaacatgtccctatgcttggtattcatgtctgacatctggcgttttctgtt...

Basic information

species Physcomitrella patens
transcript PP1S120_79V6.2
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|18342689|gb|BJ174724.1|BJ174724
EST:     GAAAAAACTGCTTTCTTATTCAAGTGCAAAGCTACCTTGGAGCTCACGCA                         TAATTGGGGGACGGAATCAGACCCAGACTTTAAGGGTTATCACAATGGAAA
genomic: GAAAAAACTGCTTTCTTATTCAAGTGCAAAGCTACCTTGGAGCTCACGCAgtaagcattc ... cggattacagTAATTGGGGGACGGAATCAGACCCAGACTTTAAGGGTTATCACAATGGAAA
EST: gi|67692817|gb|BJ953050.1|BJ953050
EST:     GAAAAAACTGCTTTCTTATTCAAGTGCAAAGCTACCTTGGAGCTCACGCA                         TAATTGGGGGACGGAATCAGACCCAGACTTTAAGGGTTATCACAATGGAAA
genomic: GAAAAAACTGCTTTCTTATTCAAGTGCAAAGCTACCTTGGAGCTCACGCAgtaagcattc ... cggattacagTAATTGGGGGACGGAATCAGACCCAGACTTTAAGGGTTATCACAATGGAAA
EST: gi|37821833|gb|BJ579899.1|BJ579899
EST:     GAAAAAACTGCTTTCTTATTCAAGTGCAAAGCTACCTTGGAGCTCACGCA                         TAATTGGGGGACGGAATCAGACCCAGACTTTAAGGGTTATCACAATGGAAA
genomic: GAAAAAACTGCTTTCTTATTCAAGTGCAAAGCTACCTTGGAGCTCACGCAgtaagcattc ... cggattacagTAATTGGGGGACGGAATCAGACCCAGACTTTAAGGGTTATCACAATGGAAA
EST: gi|67694462|gb|BJ954695.1|BJ954695
EST:     GAAAAAACTGCTTTCTTATTCAAGTGCAAAGCTACCTTGGAGCTCACGCA                         TAATTGGGGGACGGAATCAGACCCAGACTTTAAGGGTTATCACAATGGAAA
genomic: GAAAAAACTGCTTTCTTATTCAAGTGCAAAGCTACCTTGGAGCTCACGCAgtaagcattc ... cggattacagTAATTGGGGGACGGAATCAGACCCAGACTTTAAGGGTTATCACAATGGAAA
EST: gi|67574192|gb|BJ947016.1|BJ947016
EST:     GAAAAAACTGCTTTCTTATTCAAGTGCAAAGCTACCTTGGAGCTCACGCA                         TAATTGGGGGACGGAATCAGACCCAGACTTTAAGGGTTATCACAATGGAAA
genomic: GAAAAAACTGCTTTCTTATTCAAGTGCAAAGCTACCTTGGAGCTCACGCAgtaagcattc ... cggattacagTAATTGGGGGACGGAATCAGACCCAGACTTTAAGGGTTATCACAATGGAAA
EST: gi|162210552|gb|FC386848.1|FC386848
EST:     GAAAAAACTGCTTTCTTATTCAAGTGCAAAGCTACCTTGGAGCTCACGCA                         TAATTGGGGGACGGAATCAGACCCAGACTTTAAGGGTTATCACAATGGAAA
genomic: GAAAAAACTGCTTTCTTATTCAAGTGCAAAGCTACCTTGGAGCTCACGCAgtaagcattc ... cggattacagTAATTGGGGGACGGAATCAGACCCAGACTTTAAGGGTTATCACAATGGAAA
EST: gi|67569549|gb|BJ942373.1|BJ942373
EST:     GAAAAAACTGCTTTCTTATTCAAGTGCAAAGCTACCTTGGAGCTCACGCA                         TAATTGGGGGACGGAATCAGACCCAGACTTTAAGGGTTATCACAATGGAAA
genomic: GAAAAAACTGCTTTCTTATTCAAGTGCAAAGCTACCTTGGAGCTCACGCAgtaagcattc ... cggattacagTAATTGGGGGACGGAATCAGACCCAGACTTTAAGGGTTATCACAATGGAAA
EST: gi|162221907|gb|FC398175.1|FC398175
EST:     GAAAAAACTGCTTTCTTATTCAAGTGCAAAGCTACCTTGGAGCTCACGCA                         TAATTGGGGGACGGAATCAGACCCAGACTTTAAGGGTTATCACAATGGAAA
genomic: GAAAAAACTGCTTTCTTATTCAAGTGCAAAGCTACCTTGGAGCTCACGCAgtaagcattc ... cggattacagTAATTGGGGGACGGAATCAGACCCAGACTTTAAGGGTTATCACAATGGAAA
EST: gi|7582951|gb|AW699115.1|AW699115
EST:     GAAAAAACTGCTTGCTTATTCAAGTGCAAAGCTACCTTGGAGCTCACGCA                         TAATTGGGGGACGGAATCAAACGCAGACTTTAAGGGTTATCACAATGGAAA
genomic: GAAAAAACTGCTTTCTTATTCAAGTGCAAAGCTACCTTGGAGCTCACGCAgtaagcattc ... cggattacagTAATTGGGGGACGGAATCAGACCCAGACTTTAAGGGTTATCACAATGGAAA
EST: gi|162227422|gb|FC403156.1|FC403156
EST:     GAAAAAACTGCTTTCTTATTCAAGTGCAAAGCTACCTTGGAGCTCACGCA                         TAATTGGGGGACGGAATCAGACCCAGACTTTAAGGGTTATCACAATGGAAA
genomic: GAAAAAACTGCTTTCTTATTCAAGTGCAAAGCTACCTTGGAGCTCACGCAgtaagcattc ... cggattacagTAATTGGGGGACGGAATCAGACCCAGACTTTAAGGGTTATCACAATGGAAA
EST: gi|162266890|gb|FC443004.1|FC443004
EST:     GAAAAAACTGCTTTCTTATTCAAGTGCAAAGCTACCTTGGAGCTCACGCA                         TAATTGGGGGACGGAATCAGACCCAGACTTTAAGGGTTATCACAATGGAAA
genomic: GAAAAAACTGCTTTCTTATTCAAGTGCAAAGCTACCTTGGAGCTCACGCAgtaagcattc ... cggattacagTAATTGGGGGACGGAATCAGACCCAGACTTTAAGGGTTATCACAATGGAAA
EST: gi|67691738|gb|BJ951971.1|BJ951971
EST:     GAAAAAACTGCTTTCTTATTCAAGTGCAAAGCTACCTTGGAGCTCACGCA                         TAATTGGGGGACGGAATCAGACCCAGACTTTAAGGGTTATCACAATGGAAA
genomic: GAAAAAACTGCTTTCTTATTCAAGTGCAAAGCTACCTTGGAGCTCACGCAgtaagcattc ... cggattacagTAATTGGGGGACGGAATCAGACCCAGACTTTAAGGGTTATCACAATGGAAA
EST: gi|67697592|gb|BJ957825.1|BJ957825
EST:     GAAAAAACTGCTTTCTTATTCAAGTGCAAAGCTACCTTGGAGCTCACGCA                         TAATTGGGGGACGGAATCAGACCCAGACTTTAAGGGTTATCACAATGGAAA
genomic: GAAAAAACTGCTTTCTTATTCAAGTGCAAAGCTACCTTGGAGCTCACGCAgtaagcattc ... cggattacagTAATTGGGGGACGGAATCAGACCCAGACTTTAAGGGTTATCACAATGGAAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGTCCGGAAACCATCCCCAACGATACAGCAGAAAAAACTGCTTTCTTATTCAAGTGCAAAGCTACCTTGGAGCTCACGCAgtaagcattcatgttaatctgcttaaatttgtgtgtgcagcttcactgacaacatgtccctatgcttggtattcatgtctgacatctggcgttttctgtt

- - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA