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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAATACGTGCGAAGATTCTTTACTGGCCGCGCCGCTCATCTTGGACTTGGTCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctacaatctccaaatctctcttatattattctgttaatcaatcgcaaggattaacctctttggttcacattttctttggtttttggaattaaattgaatcgggtactttcatgttgcag

Basic information

species Physcomitrella patens
transcript PP1S55_204V6.1
intron # 7
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|162151054|gb|FC326871.1|FC326871
EST:     TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAG                         GAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
genomic: TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|6167250|gb|AW145514.1|AW145514
EST:     TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAG                         GAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
genomic: TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|40781590|gb|AJ583520.1|AJ583520
EST:     TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAG                         GAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
genomic: TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|162197483|gb|FC372861.1|FC372861
EST:     TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAG                         GAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
genomic: TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|162272926|gb|FC448043.1|FC448043
EST:     TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAG                         GAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
genomic: TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|162193993|gb|FC371806.1|FC371806
EST:     TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAG                         GAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
genomic: TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|19778873|gb|BQ039371.1|BQ039371
EST:     TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAG                         GAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
genomic: TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|162197697|gb|FC374947.1|FC374947
EST:     TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAG                         GAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
genomic: TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|37846747|gb|BJ604755.1|BJ604755
EST:     GCACAAGAATCCAATTCAAGGAAGNCGGACAG                         GAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
genomic: GCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|162170409|gb|FC347607.1|FC347607
EST:     TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAG                         GAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
genomic: TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|67694287|gb|BJ954520.1|BJ954520
EST:     TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAG                         GAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
genomic: TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|162194434|gb|FC368539.1|FC368539
EST:     TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAG                         GAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
genomic: TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|37846190|gb|BJ604198.1|BJ604198
EST:     TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAG                         GAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
genomic: TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|37839344|gb|BJ597352.1|BJ597352
EST:     TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAG                         GAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
genomic: TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|162165316|gb|FC340817.1|FC340817
EST:     TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAG                         GAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
genomic: TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|162172409|gb|FC349078.1|FC349078
EST:     TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAG                         GAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
genomic: TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|37843618|gb|BJ601626.1|BJ601626
EST:     TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAG                         GAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
genomic: TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|15262030|gb|BI437340.1|BI437340
EST:     TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAG                         GAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
genomic: TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|37845840|gb|BJ603848.1|BJ603848
EST:     TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAG                         GAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
genomic: TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|162182475|gb|FC357450.1|FC357450
EST:     TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAG                         GAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
genomic: TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|18340626|gb|BJ172654.1|BJ172654
EST:     GAATCCAATTCAAGNAAGACGGACAG                         GAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCNTGAGCTACCTCACC
genomic: GAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|37852058|gb|BJ610066.1|BJ610066
EST:     TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAG                         GAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
genomic: TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|37851817|gb|BJ609825.1|BJ609825
EST:     TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAG                         GAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
genomic: TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|162256552|gb|FC432862.1|FC432862
EST:     TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAG                         GAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
genomic: TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|162213492|gb|FC389364.1|FC389364
EST:     TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAG                         GAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
genomic: TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|37845009|gb|BJ603017.1|BJ603017
EST:     TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAG                         GAGGAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
genomic: TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|208346201|gb|DC925499.1|DC925499
EST:     TCTTGCTGGCTGAGCTCTGCACAAGAATCCANTTCAAGGAAGACGGACAG                         GAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
genomic: TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|37846798|gb|BJ604806.1|BJ604806
EST:     TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAG                         GAGGAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
genomic: TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|22133276|gb|BQ827647.1|BQ827647
EST:     ACAAGAATCCAATTCAAGGAAGACGGACAG                         GAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
genomic: ACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|37837950|gb|BJ595958.1|BJ595958
EST:     TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAG                         GAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
genomic: TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|19790272|gb|BQ041785.1|BQ041785
EST:     TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAG                         GAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
genomic: TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|37829754|gb|BJ587766.1|BJ587766
EST:     TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAG                         GAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
genomic: TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|162182387|gb|FC357986.1|FC357986
EST:     TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAG                         GAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
genomic: TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|162198718|gb|FC373486.1|FC373486
EST:     CCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAG                         GAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
genomic: TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|162158409|gb|FC334204.1|FC334204
EST:     TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAG                         GAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
genomic: TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|37829752|gb|BJ587764.1|BJ587764
EST:     TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAG                         GAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
genomic: TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|37845613|gb|BJ603621.1|BJ603621
EST:     TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAG                         GAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
genomic: TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAAGTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCACC
EST: gi|162246259|gb|FC421966.1|FC421966
EST:     TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAG                         GAGAAAGT-CCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCAC
genomic: TCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctaca ... catgttgcagGAGAA-GTTCCATTCTTTCCACCCGGTTGCCGTACTCCTGAGCTACCTCAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAATACGTGCGAAGATTCTTTACTGGCCGCGCCGCTCATCTTGGACTTGGTCTTGCTGGCTGAGCTCTGCACAAGAATCCAATTCAAGGAAGACGGACAGgtaatctacaatctccaaatctctcttatattattctgttaatcaatcgcaaggattaacctctttggttcacattttctttggtttttggaattaaattgaatcgggtactttcatgttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA