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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgtacttccgagagctttcccacgtaacagtgtttagttgggcccgttaatcttaggagcggcaaggatattctcacagacgcttgagtgaacgctttgtgcagGCGGTGGTGTTGTTCGCTATGGGTGGCTACGGCTCCTACCTGGGTTGGCAAATCCGTCTCAGCTCCAATGGGACAGTGAAGGCTGCCGCCAAAGACCTTC

Basic information

species Physcomitrella patens
transcript PP1S567_14V6.1
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|208388939|gb|DC932967.1|DC932967
EST:     ACTGGAACTTGCCAGAATGGATAGTACATTGGGGTCACCCAGCGAACATG                         GCGGTGGTGTTGTTCGCTATGGGTGGCTACGGCTCCTACCTGGGTTGGCAA
genomic: ACTGGAACTTGCCAGAATGGATAGTACATTGGGGTCACCCAGCGAACATGgtaagtgtac ... ctttgtgcagGCGGTGGTGTTGTTCGCTATGGGTGGCTACGGCTCCTACCTGGGTTGGCAA
EST: gi|208390909|gb|DC942227.1|DC942227
EST:     ACTGGAACTTGCCAGAATGGATAGTACATTGGGGTCACCCAGCGAACATG                         GCGGTGGTGTTGTTCGCTATGGGTGGCTACGGCTCCTACCTGGGTTGGCAA
genomic: ACTGGAACTTGCCAGAATGGATAGTACATTGGGGTCACCCAGCGAACATGgtaagtgtac ... ctttgtgcagGCGGTGGTGTTGTTCGCTATGGGTGGCTACGGCTCCTACCTGGGTTGGCAA
EST: gi|67698515|gb|BJ958748.1|BJ958748
EST:     ACTGGAACTTGCCAGAATGGATAGTACATTGGGGTCACCCAGCGAACATG                         GCGGTGGTGTTGTTCGCTATGGGTGGCTACGGCTCCTACCTGGGTTGGCAA
genomic: ACTGGAACTTGCCAGAATGGATAGTACATTGGGGTCACCCAGCGAACATGgtaagtgtac ... ctttgtgcagGCGGTGGTGTTGTTCGCTATGGGTGGCTACGGCTCCTACCTGGGTTGGCAA
EST: gi|162219881|gb|FC396696.1|FC396696
EST:     ACTGGAACTTGCCAGAATGGATAGTACATTGGGGTCACCCAGCGAACATG                         GCGGTGGTGTTGTTCGCTATGGGTGGCTACGGCTCCTACCTGGGTTGGCAA
genomic: ACTGGAACTTGCCAGAATGGATAGTACATTGGGGTCACCCAGCGAACATGgtaagtgtac ... ctttgtgcagGCGGTGGTGTTGTTCGCTATGGGTGGCTACGGCTCCTACCTGGGTTGGCAA
EST: gi|67575066|gb|BJ947890.1|BJ947890
EST:     ACTGGAACTTGCCAGAATGGATAGTACATTGGGGTCACCCAGCGAACATG                         GCGGTGGTGTTGTTCGCTATGGGTGGCTACGGCTCCTACCTGGGTTGGCAA
genomic: ACTGGAACTTGCCAGAATGGATAGTACATTGGGGTCACCCAGCGAACATGgtaagtgtac ... ctttgtgcagGCGGTGGTGTTGTTCGCTATGGGTGGCTACGGCTCCTACCTGGGTTGGCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcttaggagcggcaaggatattctcacagacgcttgagtgaacgctttgtgcagGCGGTGGTGTTGTTCGCTATGGGTGGCTACGGCTCCTACCTGGGTTGGCAAATCCGTCTCAGCTCCAATGGGACAGTGAAGGCTGCCGCCAAAGACCTTC
                     ttctcac  putative branch site (score: 2)
                  atattct  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtgtacttccgagagctttcccacgtaacagtgtttagttgggcccgttaatcttaggagcggcaaggatattctcacagacgcttgagtgaacgctttgtgcagGCGGTGGTGTTGTTCGCTATGGGTGGCTACGGCTCCTACCTGGGTTGGCAAATCCGTCTCAGCTCCAATGGGACAGTGAAGGCTGCCGCCAAAGACCTTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC