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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggcgtgaaatccttctcgtagttttattgtttgtgttttcaagttctctatttagaaaaggtttaccttccatcgaacgttttctacccaaggtcgttagtgattagtgcagtaacgctttacatttgttacatgtttcagGATGTGATTCCTCACATATCTCGACCATCTGAGAAGTATATATCTTTGATACTACCAGCATATAATGAGGAGGCAAGACTCCGCATCACCCTTGATGAAA

Basic information

species Physcomitrella patens
transcript PP1S96_201V6.1
intron # 3
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|208351033|gb|DC910496.1|DC910496
EST:     CCACGCAGCGGTGTGCCCACGTTCGGATTATTCTGAGAATGGG                         GATGTGATTCCTCACATATCTCGACCATCTGAGAAGTATATATCTTTGATA
genomic: CCACGCAGCGGTGTGCCCACGTTCGGATTATTCTGAGAATGGGgtaggcgtga ... catgtttcagGATGTGATTCCTCACATATCTCGACCATCTGAGAAGTATATATCTTTGATA
EST: gi|208354666|gb|DC934310.1|DC934310
EST:     CCACGCAGCGGTGTGCCCACGTTCGGATTATTCTGAGAATGGG                         GATGTGATTCCTCACATATCTCGACCATCTGAGAAGTATATATCTTTGATA
genomic: CCACGCAGCGGTGTGCCCACGTTCGGATTATTCTGAGAATGGGgtaggcgtga ... catgtttcagGATGTGATTCCTCACATATCTCGACCATCTGAGAAGTATATATCTTTGATA
EST: gi|100354883|gb|BY983614.1|BY983614
EST:     CCACGCAGCGGTGTGCCCACGTTCGGATTATTCTGAGAATGGG                         GATGTGATTCCTCACATATCTCGACCATCTGAGAAGTATATATCTTTGATA
genomic: CCACGCAGCGGTGTGCCCACGTTCGGATTATTCTGAGAATGGGgtaggcgtga ... catgtttcagGATGTGATTCCTCACATATCTCGACCATCTGAGAAGTATATATCTTTGATA
EST: gi|208374274|gb|DC940659.1|DC940659
EST:     CCACGCAGCGGTGTGCCCACGTTCGGATTATTCTGAGAATGGG                         GATGTGATTCCTCACATATCTCGACCATCTGAGAAGTATATATCTTTGATA
genomic: CCACGCAGCGGTGTGCCCACGTTCGGATTATTCTGAGAATGGGgtaggcgtga ... catgtttcagGATGTGATTCCTCACATATCTCGACCATCTGAGAAGTATATATCTTTGATA
EST: gi|208372484|gb|DC940773.1|DC940773
EST:     CCACGCAGCGGTGTGCCCACGTTCGGATTATTCTGAGAATGGG                         GATGTGATTCCTCACATATCTCGACCATCTGAGAAGTATATATCTTTGATA
genomic: CCACGCAGCGGTGTGCCCACGTTCGGATTATTCTGAGAATGGGgtaggcgtga ... catgtttcagGATGTGATTCCTCACATATCTCGACCATCTGAGAAGTATATATCTTTGATA
EST: gi|208400210|gb|DC908871.1|DC908871
EST:     CCACGCAGCGGTGTGCCCACGTTCGGATTATTCTGAGAATGGG                         GATGTGATTCCTCACATATCTCGACCATCTGAGAAGTATATATCTTTGATA
genomic: CCACGCAGCGGTGTGCCCACGTTCGGATTATTCTGAGAATGGGgtaggcgtga ... catgtttcagGATGTGATTCCTCACATATCTCGACCATCTGAGAAGTATATATCTTTGATA
EST: gi|18342663|gb|BJ174698.1|BJ174698
EST:     CCACGCAGCGGTGTGCCCACGTTCGGATTATTCTGAGAATGGG                         GATGTGATTCCTCACATATCTCGACCATCTGAGAAGTATATATCTTTGATA
genomic: CCACGCAGCGGTGTGCCCACGTTCGGATTATTCTGAGAATGGGgtaggcgtga ... catgtttcagGATGTGATTCCTCACATATCTCGACCATCTGAGAAGTATATATCTTTGATA
EST: gi|18361295|gb|BJ193361.1|BJ193361
EST:     CCACGCAGCGGTGTGCCCACGTTCGGATTATTCTGAGAATGGG                         GATGTGATTCCTCACATATCTCGACCATCTGAGAAGTATATATCTTTGATA
genomic: CCACGCAGCGGTGTGCCCACGTTCGGATTATTCTGAGAATGGGgtaggcgtga ... catgtttcagGATGTGATTCCTCACATATCTCGACCATCTGAGAAGTATATATCTTTGATA
EST: gi|100355017|gb|BY964959.1|BY964959
EST:     CCACGCAGCGGTGTGCCCACGTTCGGATTATTCTGAGAATGGG                         GATGTGATTCCTCACATATCTCGACCATCTGAGAAGTATATATCTTTGATA
genomic: CCACGCAGCGGTGTGCCCACGTTCGGATTATTCTGAGAATGGGgtaggcgtga ... catgtttcagGATGTGATTCCTCACATATCTCGACCATCTGAGAAGTATATATCTTTGATA
EST: gi|208360577|gb|DC930849.1|DC930849
EST:     CCACGCAGCGGTGTGCCCACGTTCGGATTATTCTGAGAATGGG                         GATGTGATTCCTCACATATCTCGACCATCTGAGAAGTATATATCTTTGATA
genomic: CCACGCAGCGGTGTGCCCACGTTCGGATTATTCTGAGAATGGGgtaggcgtga ... catgtttcagGATGTGATTCCTCACATATCTCGACCATCTGAGAAGTATATATCTTTGATA
EST: gi|208376260|gb|DC902655.1|DC902655
EST:     CCACGCAGCGGTGTGCCCACGTTCGNATTATTCTGANAANGNG                         GATGNGATTCCTCACATATCTCGACCATCTGAGAAGTATATAT
genomic: CCACGCAGCGGTGTGCCCACGTTCGGATTATTCTGAGAATGGGgtaggcgtga ... catgtttcagGATGTGATTCCTCACATATCTCGACCATCTGAGAAGTATATAT
EST: gi|100374133|gb|BY985678.1|BY985678
EST:     CCACGCAGCGGTGTGCCCACGTTCGGATTATTCTGAGAATGGG                         GATGTGATTCCTCACATATCTCGACCATCTGAGAAGTATATATCTTTGATA
genomic: CCACGCAGCGGTGTGCCCACGTTCGGATTATTCTGAGAATGGGgtaggcgtga ... catgtttcagGATGTGATTCCTCACATATCTCGACCATCTGAGAAGTATATATCTTTGATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cccaaggtcgttagtgattagtgcagtaacgctttacatttgttacatgtttcagGATGTGATTCCTCACATATCTCGACCATCTGAGAAGTATATATCTTTGATACTACCAGCATATAATGAGGAGGCAAGACTCCGCATCACCCTTGATGAAA
                       cagtaac  putative branch site (score: 2)
                                tttacattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaggcgtgaaatccttctcgtagttttattgtttgtgttttcaagttctctatttagaaaaggtttaccttccatcgaacgttttctacccaaggtcgttagtgattagtgcagtaacgctttacatttgttacatgtttcagGATGTGATTCCTCACATATCTCGACCATCTGAGAAGTATATATCTTTGATACTACCAGCATATAATGAGGAGGCAAGACTCCGCATCACCCTTGATGAAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA