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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgaagagaaactttcgtgatctaaatcaactcgttattctgcaacccgcacactaatttcaaacgagaatgtgatgtcagttccagtttttgagcgtttgtgctaaagcgataaactcctctgtcatgtgatgtgcattcaacagAGGCGGAGACAACTGTGGCTAGGACCCAACTTTTAGAGGATGCCGATCACTCTGCAAAAGCGTCACTCCAACACCAGGACGAGCTTGATTTTAATTCGG

Basic information

species Physcomitrella patens
transcript PP1S84_144V6.1
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|100353027|gb|BY945570.1|BY945570
EST:     ACAGGAGGATGAGAACCCCCCGGCAAATTCAGCAATGTGGAAGGCATCAC                         AGGCGGAGACAACTGTGGCTAGGACCCAACTTTTAGAGGATGCCGATCACT
genomic: ACAGGAGGATGAGAACCCCCCGGCAAATTCAGCAATGTGGAAGGCATCACgtacgaagag ... cattcaacagAGGCGGAGACAACTGTGGCTAGGACCCAACTTTTAGAGGATGCCGATCACT
EST: gi|100398455|gb|BY972613.1|BY972613
EST:     ACAGGAGGATGAGAACCCCCCGGCAAATTCAGCAATGTGGAAGGCATCAC                         AGGCGGAGACAACTGTGGCTAGGACCCAACTTTTAGAGGATGCCGATCACT
genomic: ACAGGAGGATGAGAACCCCCCGGCAAATTCAGCAATGTGGAAGGCATCACgtacgaagag ... cattcaacagAGGCGGAGACAACTGTGGCTAGGACCCAACTTTTAGAGGATGCCGATCACT
EST: gi|208353098|gb|DC910149.1|DC910149
EST:     ACAGGAGGATGAGAACCCCCCGGCAAATTCAGCAATGTGGAAGGCATCAC                         AGGCGGAGACAACTGTGGCTAGGACCCAACTTTTAGAGGATGCCGATCACT
genomic: ACAGGAGGATGAGAACCCCCCGGCAAATTCAGCAATGTGGAAGGCATCACgtacgaagag ... cattcaacagAGGCGGAGACAACTGTGGCTAGGACCCAACTTTTAGAGGATGCCGATCACT
EST: gi|100425397|gb|BY958574.1|BY958574
EST:     ACAGGAGGATGAGAACCCCCCGGCAAATTCAGCAATGTGGAAGGCATCAC                         AGGCGGAGACAACTGTGGCTAGGACCCAACTTTTAGAGGATGCCGATCACT
genomic: ACAGGAGGATGAGAACCCCCCGGCAAATTCAGCAATGTGGAAGGCATCACgtacgaagag ... cattcaacagAGGCGGAGACAACTGTGGCTAGGACCCAACTTTTAGAGGATGCCGATCACT
EST: gi|100387101|gb|BY951500.1|BY951500
EST:     ACAGGAGGATGAGAACCCCCCGGCAAATTCAGCAATGTGGAAGGCATCAC                         AGGCGGAGACAACTGTGGCTAGGACCCAACTTTTAGAGGATGCCGATCACT
genomic: ACAGGAGGATGAGAACCCCCCGGCAAATTCAGCAATGTGGAAGGCATCACgtacgaagag ... cattcaacagAGGCGGAGACAACTGTGGCTAGGACCCAACTTTTAGAGGATGCCGATCACT
EST: gi|100446389|gb|CJ970688.1|CJ970688
EST:     ACAGGAGGATGAGAACCCCCCGGCAAATTCAGCAATGTGGAAGGCATCAC                         AGGCGGAGACAACTGTGGCTAGGACCCAACTTTTAGAGGATGCCGATCACT
genomic: ACAGGAGGATGAGAACCCCCCGGCAAATTCAGCAATGTGGAAGGCATCACgtacgaagag ... cattcaacagAGGCGGAGACAACTGTGGCTAGGACCCAACTTTTAGAGGATGCCGATCACT
EST: gi|100370255|gb|BY985320.1|BY985320
EST:     ACAGGAGGATGAGAACCCCCCGGCAAATTCAGCAATGTGGAAGGCATCAC                         AGGCGGAGACAACTGTGGCTAGGACCCAACTTTTAGAGGA
genomic: ACAGGAGGATGAGAACCCCCCGGCAAATTCAGCAATGTGGAAGGCATCACgtacgaagag ... cattcaacagAGGCGGAGACAACTGTGGCTAGGACCCAACTTTTAGAGGA
EST: gi|100409896|gb|BY974309.1|BY974309
EST:     ACAGGAGGATGAGAACCCCCCGGCAAATTCAGCAATGTGGAAGGCATCAC                         AGGCGGAGACAACTGTGGCTAGGACCCAACTTTTAGAGGATGCCGATCACT
genomic: ACAGGAGGATGAGAACCCCCCGGCAAATTCAGCAATGTGGAAGGCATCACgtacgaagag ... cattcaacagAGGCGGAGACAACTGTGGCTAGGACCCAACTTTTAGAGGATGCCGATCACT
EST: gi|100385037|gb|BY987500.1|BY987500
EST:     ACAGGAGGATGAGAACCCCCCGGCAAATTCAGCAATGTGGAAGGCATCAC                         AGGCGGAGACAACTGTGGCTAGGACCCAACTTTTAGAGGATGCCGATCACT
genomic: ACAGGAGGATGAGAACCCCCCGGCAAATTCAGCAATGTGGAAGGCATCACgtacgaagag ... cattcaacagAGGCGGAGACAACTGTGGCTAGGACCCAACTTTTAGAGGATGCCGATCACT
EST: gi|100385459|gb|BY969796.1|BY969796
EST:     ACAGGAGGATGAGAACCCCCCGGCAAATTCAGCAATGTGGAAGGCATCAC                         AGGCGGAGACAACTGTGGCTAGGACCCAACTTTTAGAGGATGCCGATCACT
genomic: ACAGGAGGATGAGAACCCCCCGGCAAATTCAGCAATGTGGAAGGCATCACgtacgaagag ... cattcaacagAGGCGGAGACAACTGTGGCTAGGACCCAACTTTTAGAGGATGCCGATCACT
EST: gi|100425973|gb|BY977213.1|BY977213
EST:     ACAGGAGGATGAGAACCCCCCGGCAAATTCAGCAATGTGGAAGGCATCAC                         AGGCGGAGACAACTGTGGCTAGGACCCAACTTTTAGAGGATGCCGATCACT
genomic: ACAGGAGGATGAGAACCCCCCGGCAAATTCAGCAATGTGGAAGGCATCACgtacgaagag ... cattcaacagAGGCGGAGACAACTGTGGCTAGGACCCAACTTTTAGAGGATGCCGATCACT
EST: gi|100433241|gb|BY960528.1|BY960528
EST:     ACAGGAGGATGAGAACCCCCCGGCAAATTCAGCAATGTGGAAGGCATCAC                         AGGCGGAGACAACTGTGGCTAGGACCCAACTTTTAGAGGATGCCGATCACT
genomic: ACAGGAGGATGAGAACCCCCCGGCAAATTCAGCAATGTGGAAGGCATCACgtacgaagag ... cattcaacagAGGCGGAGACAACTGTGGCTAGGACCCAACTTTTAGAGGATGCCGATCACT
EST: gi|162243396|gb|FC417097.1|FC417097
EST:     ACAGGAGGATGAGAACCCCCCGGCAAATTCAGCAATGTGGAAGGCATCAC                         AGGCGGAGACAACTGTGGCTAGGACCCAACTTTTAGAGGATGCCGATCACT
genomic: ACAGGAGGATGAGAACCCCCCGGCAAATTCAGCAATGTGGAAGGCATCACgtacgaagag ... cattcaacagAGGCGGAGACAACTGTGGCTAGGACCCAACTTTTAGAGGATGCCGATCACT
EST: gi|100419885|gb|BY975897.1|BY975897
EST:     CAGGAGGATGAGAACCCCCCGGNCAA-TTCAGCAATGTGGAAGGCATCAC                         AGGCGGAGACAACTGTGGCTAGGACCCAACTTT-AGAGGATGCCGATCACT
genomic: CAGGAGGATGAGAACCCCCCGG-CAAATTCAGCAATGTGGAAGGCATCACgtacgaagag ... cattcaacagAGGCGGAGACAACTGTGGCTAGGACCCAACTTTTAGAGGATGCCGATCACT
EST: gi|100447372|gb|CJ971671.1|CJ971671
EST:     ACAGGAGGATGAGAACCCCCCGGCAAATTCAGCAATGTGGAAGGCATCAC                         AGGCGGAGACAACTGTGGCTAGGACCCAACTTTTAGAGGATGCCGATCACT
genomic: ACAGGAGGATGAGAACCCCCCGGCAAATTCAGCAATGTGGAAGGCATCACgtacgaagag ... cattcaacagAGGCGGAGACAACTGTGGCTAGGACCCAACTTTTAGAGGATGCCGATCACT
EST: gi|100359446|gb|BY984258.1|BY984258
EST:     ACAGGAGGATGAGAACCCCCCGGCAAATTCAGCAATGTGGAAGGCATCAC                         AGGCGGAGACAACTGTGGCTAGGACCCAACTTTTAGAGGATGCCGATCACT
genomic: ACAGGAGGATGAGAACCCCCCGGCAAATTCAGCAATGTGGAAGGCATCACgtacgaagag ... cattcaacagAGGCGGAGACAACTGTGGCTAGGACCCAACTTTTAGAGGATGCCGATCACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgagcgtttgtgctaaagcgataaactcctctgtcatgtgatgtgcattcaacagAGGCGGAGACAACTGTGGCTAGGACCCAACTTTTAGAGGATGCCGATCACTCTGCAAAAGCGTCACTCCAACACCAGGACGAGCTTGATTTTAATTCGG
          tgctaaa  putative branch site (score: 2)
                    ataaact  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacgaagagaaactttcgtgatctaaatcaactcgttattctgcaacccgcacactaatttcaaacgagaatgtgatgtcagttccagtttttgagcgtttgtgctaaagcgataaactcctctgtcatgtgatgtgcattcaacagAGGCGGAGACAACTGTGGCTAGGACCCAACTTTTAGAGGATGCCGATCACTCTGCAAAAGCGTCACTCCAACACCAGGACGAGCTTGATTTTAATTCGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT