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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcatttttgaactgaacacttgctttcttacaacgcttcttttgcgtgatagatttttttatttttatttatttattttattttttatgtgaagatctggatttaactgtacttgatcttttttttaacttgatgattccagGGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTGAAATTCGTGTGCAGTTTAAGGACGTCCCTGGTGACATTTTCAAGT

Basic information

species Physcomitrella patens
transcript PP1S222_130V6.2
intron # 11
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|7067204|gb|AW497059.1|AW497059
EST:     TCCTACTTTTGCATCTCTTGTTCTTCGCATCAACAACGAACGGTGGGATG                         GGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG
genomic: TCCTACTTTTGCATCTCTTGTTCTTCGCATCAACAACGAACGGTGGGATGgtatgcattt ... atgattccagGGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG
EST: gi|162220369|gb|FC395737.1|FC395737
EST:     AACACCGAACGGTGGGATG                         GGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG
genomic: AACAACGAACGGTGGGATGgtatgcattt ... atgattccagGGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG
EST: gi|162153066|gb|FC330096.1|FC330096
EST:     TCCTACTTTTGCATCTCTTGTTCTTCGCATTAACAACGAACGGTGGGATG                         GGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG
genomic: TCCTACTTTTGCATCTCTTGTTCTTCGCATCAACAACGAACGGTGGGATGgtatgcattt ... atgattccagGGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG
EST: gi|162165174|gb|FC341676.1|FC341676
EST:     TCCTACTTTTGCATCTCTTGTTCTTCGCATTAACAACGAACGGTGGGATG                         GGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG
genomic: TCCTACTTTTGCATCTCTTGTTCTTCGCATCAACAACGAACGGTGGGATGgtatgcattt ... atgattccagGGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG
EST: gi|162153065|gb|FC330095.1|FC330095
EST:     CGCATTAACAACGAACGGTGGGATG                         GGGTACTTTTCATTATGAAGGCTGGGAAATCTTNAGATACTCGAAAAGCTG
genomic: CGCATCAACAACGAACGGTGGGATGgtatgcattt ... atgattccagGGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG
EST: gi|162259274|gb|FC435671.1|FC435671
EST:     CATCAACAACGAACGGTGGGATG                         GGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG
genomic: CATCAACAACGAACGGTGGGATGgtatgcattt ... atgattccagGGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG
EST: gi|162263641|gb|FC440125.1|FC440125
EST:     TCCTACTTTTGCATCTCTTGTTCTTCGCATCAACAACGAACGGTGGGATG                         GGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG
genomic: TCCTACTTTTGCATCTCTTGTTCTTCGCATCAACAACGAACGGTGGGATGgtatgcattt ... atgattccagGGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG
EST: gi|162259275|gb|FC435672.1|FC435672
EST:     TCCTACTTTTGCATCTCTTGTTCTTCGCATCAACAACGAACGGTGGGATG                         GGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG
genomic: TCCTACTTTTGCATCTCTTGTTCTTCGCATCAACAACGAACGGTGGGATGgtatgcattt ... atgattccagGGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG
EST: gi|162276852|gb|FC452534.1|FC452534
EST:     TCCTACTTTTGCATCTCTTGTTCTTCGCATCAACAACGAACGGTGGGATG                         GGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG
genomic: TCCTACTTTTGCATCTCTTGTTCTTCGCATCAACAACGAACGGTGGGATGgtatgcattt ... atgattccagGGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG
EST: gi|67578605|gb|BJ950772.1|BJ950772
EST:     TCCTACTTTTGCATCTCTTGTTCTTCGCATCAACAACGAACGGTGGGATG                         GGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG
genomic: TCCTACTTTTGCATCTCTTGTTCTTCGCATCAACAACGAACGGTGGGATGgtatgcattt ... atgattccagGGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtgaagatctggatttaactgtacttgatcttttttttaacttgatgattccagGGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTGAAATTCGTGTGCAGTTTAAGGACGTCCCTGGTGACATTTTCAAGT
                         ttgatcttttttttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgcatttttgaactgaacacttgctttcttacaacgcttcttttgcgtgatagatttttttatttttatttatttattttattttttatgtgaagatctggatttaactgtacttgatcttttttttaacttgatgattccagGGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTGAAATTCGTGTGCAGTTTAAGGACGTCCCTGGTGACATTTTCAAGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA