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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcaagactaatccctatcatctctaactaattctgctctttgttttgttttttaaaaaaactaaaaattaagctagtaatccagaatttacttgtgctaccatgaagggagaaattgtaattgtgttgtgttctcggtctctgcagGTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGATAGAGTGCCACTTCGAGCTCATCTGTCAGCGTTTCCTTACTCTTCCTGGC

Basic information

species Physcomitrella patens
transcript PP1S101_169V6.2
intron # 5
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|37845451|gb|BJ603459.1|BJ603459
EST:     GCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAA                         GTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGAT
genomic: GCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAAgcaagactaa ... gtctctgcagGTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGAT
EST: gi|162194475|gb|FC371115.1|FC371115
EST:     GCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAA                         GTCGTTCNTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGAT
genomic: GCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAAgcaagactaa ... gtctctgcagGTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGAT
EST: gi|37840690|gb|BJ598698.1|BJ598698
EST:     GCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAA                         GTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGAT
genomic: GCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAAgcaagactaa ... gtctctgcagGTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGAT
EST: gi|37821522|gb|BJ579588.1|BJ579588
EST:     GCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAA                         GTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGAT
genomic: GCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAAgcaagactaa ... gtctctgcagGTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGAT
EST: gi|37848000|gb|BJ606008.1|BJ606008
EST:     GCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAA                         GTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGAT
genomic: GCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAAgcaagactaa ... gtctctgcagGTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGAT
EST: gi|208368471|gb|DC955124.1|DC955124
EST:     GCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAA                         GTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGAT
genomic: GCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAAgcaagactaa ... gtctctgcagGTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGAT
EST: gi|37852983|gb|BJ610991.1|BJ610991
EST:     GCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAA                         GTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGAT
genomic: GCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAAgcaagactaa ... gtctctgcagGTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGAT
EST: gi|37842052|gb|BJ600060.1|BJ600060
EST:     GCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAA                         GTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGAT
genomic: GCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAAgcaagactaa ... gtctctgcagGTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGAT
EST: gi|37849754|gb|BJ607762.1|BJ607762
EST:     GCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAA                         GTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGAT
genomic: GCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAAgcaagactaa ... gtctctgcagGTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtgctaccatgaagggagaaattgtaattgtgttgtgttctcggtctctgcagGTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGATAGAGTGCCACTTCGAGCTCATCTGTCAGCGTTTCCTTACTCTTCCTGGC
                                              tctctgc  CT-rich tract
                    aaattgtaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcaagactaatccctatcatctctaactaattctgctctttgttttgttttttaaaaaaactaaaaattaagctagtaatccagaatttacttgtgctaccatgaagggagaaattgtaattgtgttgtgttctcggtctctgcagGTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGATAGAGTGCCACTTCGAGCTCATCTGTCAGCGTTTCCTTACTCTTCCTGGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA