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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacaatatttacaacttctgttttttaatcaataatatgtgacagaaatatgggggttggttccttgaggtacgtttttgaggagtccaaatatgagtggtgtgcagATTAAGGAGGTGAAGGAAGTGACTCTTTCAGCAAATCAGGAGAAATCTGAAGTGAAGAAATTGGAGTGGAATATTGAGGCGAGCGAAGCAAGCCCGAAGA

Basic information

species Physcomitrella patens
transcript PP1S129_147V6.1
intron # 29
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|162186786|gb|FC362822.1|FC362822
EST:     TGTCAAGAACCTCTACGGTCGATCTGTTAAATCTTTTCCCCAACCATAAG                         ATTAAGGAGGTGAAGGAAGTGACTCTTTCAGCAAATCAGGAGAAATCTGAA
genomic: TGTCAAGAACCTCTACGGTCGATCTGTTAAATCTTTTCCCCAACCATAAGgtacaatatt ... tggtgtgcagATTAAGGAGGTGAAGGAAGTGACTCTTTCAGCAAATCAGGAGAAATCTGAA
EST: gi|162197287|gb|FC372249.1|FC372249
EST:     TGTCAAGAACCTCTACGGTCGATCTGTTAAATCTTTTCCCCAACCATAAG                         ATTAAGGAGGTGAAGGAAGTGTCTCTTTCAGCAAATCAGGAGAAATCTGAA
genomic: TGTCAAGAACCTCTACGGTCGATCTGTTAAATCTTTTCCCCAACCATAAGgtacaatatt ... tggtgtgcagATTAAGGAGGTGAAGGAAGTGACTCTTTCAGCAAATCAGGAGAAATCTGAA
EST: gi|162167451|gb|FC343154.1|FC343154
EST:     TGTCAAGAACCTCTACGGTCGATCTGTTAAATCTTTTCCCCAACCATAAG                         ATTAAGGAGGTGAAGGAAGTGACTCTTTCAGCAAATCAGGAGAAATCTGAA
genomic: TGTCAAGAACCTCTACGGTCGATCTGTTAAATCTTTTCCCCAACCATAAGgtacaatatt ... tggtgtgcagATTAAGGAGGTGAAGGAAGTGACTCTTTCAGCAAATCAGGAGAAATCTGAA
EST: gi|162177883|gb|FC355133.1|FC355133
EST:     TGTCAAGAACCTCTACGGTCGATCTGTTAAATCTTTTCCCCAACCATAAG                         ATTAAGGAGGTGAAGGAAGTGACTCTTTCAGCAAATCAGGAGAAATCTGAA
genomic: TGTCAAGAACCTCTACGGTCGATCTGTTAAATCTTTTCCCCAACCATAAGgtacaatatt ... tggtgtgcagATTAAGGAGGTGAAGGAAGTGACTCTTTCAGCAAATCAGGAGAAATCTGAA
EST: gi|162243942|gb|FC424286.1|FC424286
EST:     TGTCAAGAACCTCTACGGTCGATCTGTTAAATCTTTTCCCCAACCATAAG                         ATTAAGGAGGTGAAGGAAGTGACTCTTTCAGCAAATCAGGAGAAATCTGAA
genomic: TGTCAAGAACCTCTACGGTCGATCTGTTAAATCTTTTCCCCAACCATAAGgtacaatatt ... tggtgtgcagATTAAGGAGGTGAAGGAAGTGACTCTTTCAGCAAATCAGGAGAAATCTGAA
EST: gi|162197288|gb|FC372250.1|FC372250
EST:     TGTCAAGAACCTCTACGGTCGATCTGTTAAATCTTTTCCCCA-CCATAAG                         ATTA-GGAGGTGAAGGA-GTGACTCTTTCAGCAA-TCAGGAGAAATCTGAA
genomic: TGTCAAGAACCTCTACGGTCGATCTGTTAAATCTTTTCCCCAACCATAAGgtacaatatt ... tggtgtgcagATTAAGGAGGTGAAGGAAGTGACTCTTTCAGCAAATCAGGAGAAATCTGAA
EST: gi|162242202|gb|FC415841.1|FC415841
EST:     TGTCAAGAACCTCTACGGTCGATCTGTTAAATCTTTTCCCCAACCATAAG                         ATTAAGGAGGTGAAGGAAGTGACTCTTTCAGCAAATCAGGAGAAATCTGAA
genomic: TGTCAAGAACCTCTACGGTCGATCTGTTAAATCTTTTCCCCAACCATAAGgtacaatatt ... tggtgtgcagATTAAGGAGGTGAAGGAAGTGACTCTTTCAGCAAATCAGGAGAAATCTGAA
EST: gi|37848274|gb|BJ606282.1|BJ606282
EST:     TGTCAAGAACCTCTACGGTCGATCTGTTAAATCTTTTCCCCAACCATAAG                         ATTAAGGAGGTGAAGGAAGTGACTCTTTCAGCAAATCAGGAGAAATCTGAA
genomic: TGTCAAGAACCTCTACGGTCGATCTGTTAAATCTTTTCCCCAACCATAAGgtacaatatt ... tggtgtgcagATTAAGGAGGTGAAGGAAGTGACTCTTTCAGCAAATCAGGAGAAATCTGAA
EST: gi|162242229|gb|FC415842.1|FC415842
EST:     TGTCAAGAACCTCTACGGTCGATCTGTTAAATCTTTTCCCCAACCATAAG                         ATTAAGGAGGTGAAGGAAGTGACTCTTTCAGCAAATCAGGAGAAATCTGAA
genomic: TGTCAAGAACCTCTACGGTCGATCTGTTAAATCTTTTCCCCAACCATAAGgtacaatatt ... tggtgtgcagATTAAGGAGGTGAAGGAAGTGACTCTTTCAGCAAATCAGGAGAAATCTGAA
EST: gi|162196025|gb|FC372703.1|FC372703
EST:     TGTCAAGAACCTCTACGGTCGATCTGTTAAATCTTTTCCCCAACCATAAG                         ATTAAGGAGGTGAAGGAAGTGACTCTTTCAGCAAATCAGGAGAAATCTGAA
genomic: TGTCAAGAACCTCTACGGTCGATCTGTTAAATCTTTTCCCCAACCATAAGgtacaatatt ... tggtgtgcagATTAAGGAGGTGAAGGAAGTGACTCTTTCAGCAAATCAGGAGAAATCTGAA
EST: gi|18337956|gb|BJ169980.1|BJ169980
EST:     TGTCAAGAACCTCTACGGTCGATCTGTTAAATCTTTTCCCCAACCATAAG                         ATTAAGGAGGTGAAGGAAGTGACTCTTTCAGCAAATCAGGAGAAATCTGAA
genomic: TGTCAAGAACCTCTACGGTCGATCTGTTAAATCTTTTCCCCAACCATAAGgtacaatatt ... tggtgtgcagATTAAGGAGGTGAAGGAAGTGACTCTTTCAGCAAATCAGGAGAAATCTGAA
EST: gi|208385867|gb|DC956705.1|DC956705
EST:     TGTCAAGAACCTCTACGGTCGATCTGTTAAATCTTTTCCCCAACCATAAG                         ATTAAGGAGGTGAAGGAAGTGACTCTTTCAGCAAATCAGGAGAAATCTGAA
genomic: TGTCAAGAACCTCTACGGTCGATCTGTTAAATCTTTTCCCCAACCATAAGgtacaatatt ... tggtgtgcagATTAAGGAGGTGAAGGAAGTGACTCTTTCAGCAAATCAGGAGAAATCTGAA
EST: gi|37844500|gb|BJ602508.1|BJ602508
EST:     TGTCAAGAACCTCTACGGTCGATCTGTTAAATCTTTTCCCCAACCATAAG                         ATTAAGGAGGTGAAGGAAGTGACTCTTTCAGCAAATCAGGAGAAATCTGAA
genomic: TGTCAAGAACCTCTACGGTCGATCTGTTAAATCTTTTCCCCAACCATAAGgtacaatatt ... tggtgtgcagATTAAGGAGGTGAAGGAAGTGACTCTTTCAGCAAATCAGGAGAAATCTGAA
EST: gi|162196024|gb|FC372702.1|FC372702
EST:     TGTCAAGAACCTCTACGGTCGATCTGTTAAATCTTTTCCCCAACCATAAG                         ATTAAGGAGGTGAAGGAAGTGACTCTTTCAGCAAATCAGGAGAAATCTGAA
genomic: TGTCAAGAACCTCTACGGTCGATCTGTTAAATCTTTTCCCCAACCATAAGgtacaatatt ... tggtgtgcagATTAAGGAGGTGAAGGAAGTGACTCTTTCAGCAAATCAGGAGAAATCTGAA
EST: gi|162161758|gb|FC337899.1|FC337899
EST:     TGTCAAGAACCTCTACGGTCGATCTGTTAAATCTTTTCCCCAACCATAAG                         ATTAAGGAGGTGAAGGAAGTGACTCTTTCAGCAAATCAGGAGAAATCTGAA
genomic: TGTCAAGAACCTCTACGGTCGATCTGTTAAATCTTTTCCCCAACCATAAGgtacaatatt ... tggtgtgcagATTAAGGAGGTGAAGGAAGTGACTCTTTCAGCAAATCAGGAGAAATCTGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggggttggttccttgaggtacgtttttgaggagtccaaatatgagtggtgtgcagATTAAGGAGGTGAAGGAAGTGACTCTTTCAGCAAATCAGGAGAAATCTGAAGTGAAGAAATTGGAGTGGAATATTGAGGCGAGCGAAGCAAGCCCGAAGA
                                    aaatatga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacaatatttacaacttctgttttttaatcaataatatgtgacagaaatatgggggttggttccttgaggtacgtttttgaggagtccaaatatgagtggtgtgcagATTAAGGAGGTGAAGGAAGTGACTCTTTCAGCAAATCAGGAGAAATCTGAAGTGAAGAAATTGGAGTGGAATATTGAGGCGAGCGAAGCAAGCCCGAAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA