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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGAAGATTTTGAGTTGGTGAAAGTATACTTAAAAGCTGGAGAGCACGACGCTCCATCATGGACCTCCATGACGgtgaagaatcccccgctcttgactcaagtcacgaagtctcaagctttaggtgcatgtacgttcgcaatgactgaaatctaacttggaaaactggactgtgatgcag

Basic information

species Physcomitrella patens
transcript PP1S46_325V6.2
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|208349859|gb|DC905983.1|DC905983
EST:     TATACTTAAAAGCTGGAGAGCACGACGCTCCATCATGGACCTCCATGACG                         CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATG
genomic: TATACTTAAAAGCTGGAGAGCACGACGCTCCATCATGGACCTCCATGACGgtgaagaatc ... tgtgatgcagCCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATG
EST: gi|37833115|gb|BJ591127.1|BJ591127
EST:     CTTAAAAGCTGGAGAGCACGACGCTCCATCATGGACCTCCATGACG                         CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCT-TATG
genomic: CTTAAAAGCTGGAGAGCACGACGCTCCATCATGGACCTCCATGACGgtgaagaatc ... tgtgatgcagCCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATG
EST: gi|208344704|gb|DC905153.1|DC905153
EST:     TATACTTAAAAGCTGGAGAGCACGACGCTCCATCATGGACCTCCATGACG                         CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATG
genomic: TATACTTAAAAGCTGGAGAGCACGACGCTCCATCATGGACCTCCATGACGgtgaagaatc ... tgtgatgcagCCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATG
EST: gi|162269338|gb|FC444816.1|FC444816
EST:     TATACTTAAAAGCTGGAGAGCACGACGCTCCATCATGGACCTCCATGACG                         CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATG
genomic: TATACTTAAAAGCTGGAGAGCACGACGCTCCATCATGGACCTCCATGACGgtgaagaatc ... tgtgatgcagCCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATG
EST: gi|208387810|gb|DC941379.1|DC941379
EST:     TATACTTAAAAGCTGGAGAGCACGACGCTCCATCATGGACCTCCATGACG                         CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATG
genomic: TATACTTAAAAGCTGGAGAGCACGACGCTCCATCATGGACCTCCATGACGgtgaagaatc ... tgtgatgcagCCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATG
EST: gi|208379946|gb|DC927672.1|DC927672
EST:     TATACTTAAAAGCTGGAGAGCACGACGCTCCATCATGGACCTCCATGACG                         CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATG
genomic: TATACTTAAAAGCTGGAGAGCACGACGCTCCATCATGGACCTCCATGACGgtgaagaatc ... tgtgatgcagCCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATG
EST: gi|18357078|gb|BJ189137.1|BJ189137
EST:     TATACTTAAAAGCTGGAGAGCACGACGCTCCATCATGGACCTCCATGACG                         CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATG
genomic: TATACTTAAAAGCTGGAGAGCACGACGCTCCATCATGGACCTCCATGACGgtgaagaatc ... tgtgatgcagCCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATG
EST: gi|208363225|gb|DC954383.1|DC954383
EST:     ATCATGGACCTCCATGACG                         CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATG
genomic: ATCATGGACCTCCATGACGgtgaagaatc ... tgtgatgcagCCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATG
EST: gi|162269339|gb|FC444817.1|FC444817
EST:     TATACTTAAAAGCTGGAGAGCACGACGCTCCATCATGGACCTCCATGACG                         CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATG
genomic: TATACTTAAAAGCTGGAGAGCACGACGCTCCATCATGGACCTCCATGACGgtgaagaatc ... tgtgatgcagCCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATG
EST: gi|208393393|gb|DC942491.1|DC942491
EST:     TATACTTAAAAGCTGGAGAGCACGACGCTCCATCATGGACCTCCATGACG                         CCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATG
genomic: TATACTTAAAAGCTGGAGAGCACGACGCTCCATCATGGACCTCCATGACGgtgaagaatc ... tgtgatgcagCCTTTTAAACAAGTTCCAGTGTTCGAGTGTGGTGACTTTCATCTGTATG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTGAAGATTTTGAGTTGGTGAAAGTATACTTAAAAGCTGGAGAGCACGACGCTCCATCATGGACCTCCATGACGgtgaagaatcccccgctcttgactcaagtcacgaagtctcaagctttaggtgcatgtacgttcgcaatgactgaaatctaacttggaaaactggactgtgatgcag

- - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA