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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGTGCTGAGTGCAAGGAAAGGGCCACCCCCGAGCAGGTTGCCCAGTACACCTTGAACATGTTGAAGAGGCGTGTGCCCCCTGCCGTTCCTGGAATCATGgtaattttaaatacttctgacctatccttggattctgctataccttgacttctgccttcaagtgtgagactaccgattgcttgaaacgatacgtcatgcatagaggaactctaatctgtttcaacttgcttgtgcag

Basic information

species Physcomitrella patens
transcript PP1S475_27V6.3
intron # 3
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|162214655|gb|FC390686.1|FC390686
EST:     CCTTGAACATGTTGAAGAGGCGTGTGCCCCCTGCCGTTCCTGGAATCATG                         TTCTTGTCTGGTGGACAATCTGAGG
genomic: CCTTGAACATGTTGAAGAGGCGTGTGCCCCCTGCCGTTCCTGGAATCATGgtaattttaa ... gcttgtgcagTTCTTGTCTGGTGGACAATCTGAGG
EST: gi|162217260|gb|FC392000.1|FC392000
EST:     CCTTGAACATGTTGAAGAGGCGTGTGCCCCCTGCCGTTCCTGGAATCATG                         TTCTTGTCTGGTGGACAATCTGAGG
genomic: CCTTGAACATGTTGAAGAGGCGTGTGCCCCCTGCCGTTCCTGGAATCATGgtaattttaa ... gcttgtgcagTTCTTGTCTGGTGGACAATCTGAGG
EST: gi|162154636|gb|FC331574.1|FC331574
EST:     CCTTGAACATGTTGAAGAGGCGTGTGCCCCCTGCCGTTCCTGGAATCATG                         TTCTTGTCTGGTGGACAATCTGAGG
genomic: CCTTGAACATGTTGAAGAGGCGTGTGCCCCCTGCCGTTCCTGGAATCATGgtaattttaa ... gcttgtgcagTTCTTGTCTGGTGGACAATCTGAGG
EST: gi|162150715|gb|FC327611.1|FC327611
EST:     CCTTGAACATGTTGAAGAGGCGTGTGCCCCCTGCCGTTCCTGGAATCATG                         TTCTTGTCTGGTGGACAATCTGAGG
genomic: CCTTGAACATGTTGAAGAGGCGTGTGCCCCCTGCCGTTCCTGGAATCATGgtaattttaa ... gcttgtgcagTTCTTGTCTGGTGGACAATCTGAGG
EST: gi|162153787|gb|FC329918.1|FC329918
EST:     CCTTGAACATGTTGAAGAGGCGTGTGCCCCCTGCCGTTCCTGGAATCATG                         TTCTTGTCTGGGGGACAATCTGAGG
genomic: CCTTGAACATGTTGAAGAGGCGTGTGCCCCCTGCCGTTCCTGGAATCATGgtaattttaa ... gcttgtgcagTTCTTGTCTGGTGGACAATCTGAGG
EST: gi|162177100|gb|FC353153.1|FC353153
EST:     CCTTGAACATGTTGAAGAGGCGTGTGCCCCCTGCCGTTCCTGGAATCATG                         TTCTTGTCTGGTGGACAATCTGAGG
genomic: CCTTGAACATGTTGAAGAGGCGTGTGCCCCCTGCCGTTCCTGGAATCATGgtaattttaa ... gcttgtgcagTTCTTGTCTGGTGGACAATCTGAGG
EST: gi|18338654|gb|BJ170678.1|BJ170678
EST:     CCTTGAACATGTTGAAGAGGCGTGTGCCCCCTGCCGTTCCTGGAATCATG                         TTCTTGTCTGGTGGACAATCTGAG
genomic: CCTTGAACATGTTGAAGAGGCGTGTGCCCCCTGCCGTTCCTGGAATCATGgtaattttaa ... gcttgtgcagTTCTTGTCTGGTGGACAATCTGAG
EST: gi|162158725|gb|FC335573.1|FC335573
EST:     CCTTGAACATGTTGAAGAGGCGTGTGCCCCCTGCCGTTCCTGGAATCATG                         TTCTTGTCTGGTGGACAATCTGAGG
genomic: CCTTGAACATGTTGAAGAGGCGTGTGCCCCCTGCCGTTCCTGGAATCATGgtaattttaa ... gcttgtgcagTTCTTGTCTGGTGGACAATCTGAGG
EST: gi|162195100|gb|FC371375.1|FC371375
EST:     CCTTGAACATGTTGAAGAGGCGTGTGCCCCCTGCCGTTCCTGGAATCATG                         TTCTTGTCTGGTGGACAATCTGAGG
genomic: CCTTGAACATGTTGAAGAGGCGTGTGCCCCCTGCCGTTCCTGGAATCATGgtaattttaa ... gcttgtgcagTTCTTGTCTGGTGGACAATCTGAGG
EST: gi|162161754|gb|FC337895.1|FC337895
EST:     CCTTGAACATGTTGAAGAGGCGTGTGCCCCCTGCCGTTCCTGGAATCATG                         TTCTTGTCTGGTGGACAATCTGAGG
genomic: CCTTGAACATGTTGAAGAGGCGTGTGCCCCCTGCCGTTCCTGGAATCATGgtaattttaa ... gcttgtgcagTTCTTGTCTGGTGGACAATCTGAGG
EST: gi|162182928|gb|FC359805.1|FC359805
EST:     CCTTGAACATGTTGAAGAGGCGTGTGCCCCCTGCCGTTCCTGGAATCATG                         TTCTTGTCTGGTGGACAATCTGA
genomic: CCTTGAACATGTTGAAGAGGCGTGTGCCCCCTGCCGTTCCTGGAATCATGgtaattttaa ... gcttgtgcagTTCTTGTCTGGTGGACAATCTGA
EST: gi|162241573|gb|FC414695.1|FC414695
EST:     CCTTGAACATGTTGAAGAGGCGTGTGCCCCCTGCCGTTCCTGGAATCATG                         TTCTTGTCTGGTGGACAATCTGAGG
genomic: CCTTGAACATGTTGAAGAGGCGTGTGCCCCCTGCCGTTCCTGGAATCATGgtaattttaa ... gcttgtgcagTTCTTGTCTGGTGGACAATCTGAGG
EST: gi|162202540|gb|FC378729.1|FC378729
EST:     CCTTGAACATGTTGAAGAGGCGTGTGCCCCCTGCCGTTCCTGGAATCATG                         TTCTTGTCTGGTGGACAATCTGAGG
genomic: CCTTGAACATGTTGAAGAGGCGTGTGCCCCCTGCCGTTCCTGGAATCATGgtaattttaa ... gcttgtgcagTTCTTGTCTGGTGGACAATCTGAGG
EST: gi|162180492|gb|FC356134.1|FC356134
EST:     CCTTGAACATGTTGAAGAGGCGTGTGCCCCCTGCCGTTCCTGGAATCATG                         TTCTTGTCTGGTGGACAATCTGAGG
genomic: CCTTGAACATGTTGAAGAGGCGTGTGCCCCCTGCCGTTCCTGGAATCATGgtaattttaa ... gcttgtgcagTTCTTGTCTGGTGGACAATCTGAGG
EST: gi|162165679|gb|FC342246.1|FC342246
EST:     CCTTGAACATGTTGAAGAGGCGTGTGCCCCCTGCCGTTCCTGGAATCATG                         TTCTTGTCTGGTGGACAATCTGAGG
genomic: CCTTGAACATGTTGAAGAGGCGTGTGCCCCCTGCCGTTCCTGGAATCATGgtaattttaa ... gcttgtgcagTTCTTGTCTGGTGGACAATCTGAGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGTGCTGAGTGCAAGGAAAGGGCCACCCCCGAGCAGGTTGCCCAGTACACCTTGAACATGTTGAAGAGGCGTGTGCCCCCTGCCGTTCCTGGAATCATGgtaattttaaatacttctgacctatccttggattctgctataccttgacttctgccttcaagtgtgagactaccgattgcttgaaacgatacgtcatgcatagaggaactctaatctgtttcaacttgcttgtgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG