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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGTTTTTGTGTGAAAAGCTCAACTTAATCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCAgtaagtgcatctcccctgattttaaaaagaaaaacttatttattcggtcttcacccgtacgagcacttggaaggaacgattttagtggcactaagtttta...

Basic information

species Physcomitrella patens
transcript PP1S9_103V6.2
intron # 5
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|208373828|gb|DC936599.1|DC936599
EST:     TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCA                         GTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
genomic: TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCAgtaagtgcat ... gtgttggcagGTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
EST: gi|100436155|gb|BY979407.1|BY979407
EST:     TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCA                         GTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGA
genomic: TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCAgtaagtgcat ... gtgttggcagGTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGA
EST: gi|100387442|gb|BY988313.1|BY988313
EST:     TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCA                         GTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
genomic: TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCAgtaagtgcat ... gtgttggcagGTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
EST: gi|100379638|gb|BY949869.1|BY949869
EST:     TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCA                         GTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGNAG-ACCTTGCTGA
genomic: TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCAgtaagtgcat ... gtgttggcagGTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAG-AGGACCTTGCTGA
EST: gi|100395304|gb|BY953670.1|BY953670
EST:     TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCA                         GTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
genomic: TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCAgtaagtgcat ... gtgttggcagGTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
EST: gi|67712940|gb|BJ966389.1|BJ966389
EST:     TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCA                         GTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
genomic: TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCAgtaagtgcat ... gtgttggcagGTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
EST: gi|100438224|gb|BY961716.1|BY961716
EST:     TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCA                         GTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
genomic: TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCAgtaagtgcat ... gtgttggcagGTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
EST: gi|208369720|gb|DC932618.1|DC932618
EST:     TCAACGAGATGTATTTTGCCATTGCTTTANATCGAGCTAGTGCGGGGCCA                         GTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATANAGGACCTTGCTGAA
genomic: TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCAgtaagtgcat ... gtgttggcagGTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
EST: gi|208390018|gb|DC938073.1|DC938073
EST:     TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCA                         GTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
genomic: TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCAgtaagtgcat ... gtgttggcagGTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
EST: gi|208376441|gb|DC932309.1|DC932309
EST:     TCAACGAGATGTATTTTGCCATTGCTTTANATCGAGCTAGTGCGGGGCCA                         GTCATGATTGCTTGCGCTAANGGTGGAACCANCATANAGGACCTTGCTGAN
genomic: TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCAgtaagtgcat ... gtgttggcagGTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
EST: gi|208354269|gb|DC902483.1|DC902483
EST:     TCAACGAGATGTATTTTGCCATTGCTTTANATCGAGCTAGNGCGGGGCCA                         GTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
genomic: TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCAgtaagtgcat ... gtgttggcagGTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
EST: gi|208386847|gb|DC941565.1|DC941565
EST:     TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCA                         GTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
genomic: TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCAgtaagtgcat ... gtgttggcagGTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
EST: gi|100365282|gb|BY966901.1|BY966901
EST:     TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCA                         GTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
genomic: TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCAgtaagtgcat ... gtgttggcagGTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
EST: gi|100379592|gb|BY949846.1|BY949846
EST:     TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCA                         GTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
genomic: TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCAgtaagtgcat ... gtgttggcagGTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
EST: gi|67704790|gb|BJ965023.1|BJ965023
EST:     TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCA                         GTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
genomic: TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCAgtaagtgcat ... gtgttggcagGTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
EST: gi|67719429|gb|BJ969688.1|BJ969688
EST:     TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCA                         GTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
genomic: TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCAgtaagtgcat ... gtgttggcagGTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
EST: gi|208364000|gb|DC939593.1|DC939593
EST:     TCAACGAGATGTATTTTGCCATTGCTTTANATCGAGCTAGTGCGGGGCCA                         GTCATGATTGCTTGCGCTAANGGTGGAACCANCATAAAGGACCTTGCTGAA
genomic: TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCAgtaagtgcat ... gtgttggcagGTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
EST: gi|208393623|gb|DC904339.1|DC904339
EST:     TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCA                         GTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
genomic: TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCAgtaagtgcat ... gtgttggcagGTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
EST: gi|100376654|gb|BY949400.1|BY949400
EST:     TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCA                         GTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGNAG-ACCTTGCTGA
genomic: TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCAgtaagtgcat ... gtgttggcagGTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAG-AGGACCTTGCTGA
EST: gi|100385264|gb|BY950856.1|BY950856
EST:     TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCA                         GTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
genomic: TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCAgtaagtgcat ... gtgttggcagGTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
EST: gi|100394556|gb|BY989846.1|BY989846
EST:     TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCA                         GTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
genomic: TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCAgtaagtgcat ... gtgttggcagGTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
EST: gi|100444730|gb|BY982559.1|BY982559
EST:     TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCA                         GTCATGATTGCTTGCGCTAAGGGTGGA-CCAGCATAGAGGACCTTGCTGAG
genomic: TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCAgtaagtgcat ... gtgttggcagGTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
EST: gi|100369353|gb|BY948059.1|BY948059
EST:     TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCA                         GTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
genomic: TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCAgtaagtgcat ... gtgttggcagGTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
EST: gi|100356151|gb|BY946222.1|BY946222
EST:     TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCA                         GTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
genomic: TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCAgtaagtgcat ... gtgttggcagGTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
EST: gi|67508667|gb|BJ941528.1|BJ941528
EST:     TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCA                         GTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
genomic: TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCAgtaagtgcat ... gtgttggcagGTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG
EST: gi|100363621|gb|BY966478.1|BY966478
EST:     TCAACGAGATGTATTTTGACATTGCTTTAGATCGAGCTAGTGCGGGGCCA                         GTCATGATTGCTTGCGCTAAGGGTGGAACCCGCGTAGAGGACCTTGCTGAG
genomic: TCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCAgtaagtgcat ... gtgttggcagGTCATGATTGCTTGCGCTAAGGGTGGAACCAGCATAGAGGACCTTGCTGAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGTTTTTGTGTGAAAAGCTCAACTTAATCAACGAGATGTATTTTGCCATTGCTTTAGATCGAGCTAGTGCGGGGCCAgtaagtgcatctcccctgattttaaaaagaaaaacttatttattcggtcttcacccgtacgagcacttggaaggaacgattttagtggcactaagtttta

- - - - - - - - - - - - - - - -  GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaagaaa