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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtggcgccaattcgattaaataatatgccttatttttgaatcccacatcgagtgccatgggaatggattttcaatctcatctggtggaatcaagtactattgcagGGTCAAGCCATGCGGCAGAAGCACCTGCAATTCAACAAAGCGGTCATGAGCATCTGGGATTGTTGCGAGCTTCTGAACGAGTGCGTAGATGACAGCGATC

Basic information

species Physcomitrella patens
transcript PP1S94_154V6.1
intron # 2
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|208361602|gb|DC942845.1|DC942845
EST:     GCGTGGAGGATCTCTATCGCGCTAATCATACTCACCAGACCTACGATTTC                         GGTCAAGCCATGCGGCAGAAGCACCTGCAATTCAACAAAGCGGTCATGAGC
genomic: GCGTGGAGGATCTCTATCGCGCTAATCATACTCACCAGACCTACGATTTCgtaagtggcg ... actattgcagGGTCAAGCCATGCGGCAGAAGCACCTGCAATTCAACAAAGCGGTCATGAGC
EST: gi|208359835|gb|DC934864.1|DC934864
EST:     GCGTGGAGGATCTCTATCGCGCTAATCATACTCACCAGACCTACGATTTC                         GGTCAAGCCATGCGGCAGAAGCACCTGCAATTCAACAAAGCGGTCATGAGC
genomic: GCGTGGAGGATCTCTATCGCGCTAATCATACTCACCAGACCTACGATTTCgtaagtggcg ... actattgcagGGTCAAGCCATGCGGCAGAAGCACCTGCAATTCAACAAAGCGGTCATGAGC
EST: gi|208365450|gb|DC950917.1|DC950917
EST:     GCGTGGAGGATCTCTATCGCGCTAATCATACTCACCAGACNTACGATTTC                         GGTCAAGCCATGCGGCAGAAGCACCTGCAATTCAACAAAGCGGTCATGAGC
genomic: GCGTGGAGGATCTCTATCGCGCTAATCATACTCACCAGACCTACGATTTCgtaagtggcg ... actattgcagGGTCAAGCCATGCGGCAGAAGCACCTGCAATTCAACAAAGCGGTCATGAGC
EST: gi|208354165|gb|DC957399.1|DC957399
EST:     GCGTGGAGGATCTCTATCGCGCTAATCATACTCACCAGACCTACGATTTC                         GGTCAAGCCATGCGGCAGAAGCACCTGCAATTCAACAAAGCGGTCATGAGC
genomic: GCGTGGAGGATCTCTATCGCGCTAATCATACTCACCAGACCTACGATTTCgtaagtggcg ... actattgcagGGTCAAGCCATGCGGCAGAAGCACCTGCAATTCAACAAAGCGGTCATGAGC
EST: gi|208385585|gb|DC937130.1|DC937130
EST:     GCGTGGAGGATCTCTATCGCGCTAATCATACTCACCAGACCTACGATTTC                         GGTCAAGCCATGCGGCAGAAGCACCTGCAATTCAACAAAGCGGTCATGAGC
genomic: GCGTGGAGGATCTCTATCGCGCTAATCATACTCACCAGACCTACGATTTCgtaagtggcg ... actattgcagGGTCAAGCCATGCGGCAGAAGCACCTGCAATTCAACAAAGCGGTCATGAGC
EST: gi|67712661|gb|BJ966110.1|BJ966110
EST:     GCGTGGAGGATCTCTATCGCGCTAATCATACTCACCAGGCCTACGATTTC                         GGTCAAGCCATGCGGCAGAAGCACCTGCAATTCAACAAAGCGGTCATGAGC
genomic: GCGTGGAGGATCTCTATCGCGCTAATCATACTCACCAGACCTACGATTTCgtaagtggcg ... actattgcagGGTCAAGCCATGCGGCAGAAGCACCTGCAATTCAACAAAGCGGTCATGAGC
EST: gi|208390700|gb|DC937856.1|DC937856
EST:     GCGTGGAGGATCTCTATCGCGCTAATCATACTCACCAGACCTACGATTTC                         GGTCAAGCCATGCGGCAGAAGCACCTGCAATTCAACAAAGCGGTCATGAGC
genomic: GCGTGGAGGATCTCTATCGCGCTAATCATACTCACCAGACCTACGATTTCgtaagtggcg ... actattgcagGGTCAAGCCATGCGGCAGAAGCACCTGCAATTCAACAAAGCGGTCATGAGC
EST: gi|208385576|gb|DC937121.1|DC937121
EST:     GCGTGGAGGATCTCTATCGCGCTAATCATACTCACCAGACCTACGATTTC                         GGTCAAGCCATGCGGCAGAAGCACCTGCAATTCAACAAAGCGGTCATGAGC
genomic: GCGTGGAGGATCTCTATCGCGCTAATCATACTCACCAGACCTACGATTTCgtaagtggcg ... actattgcagGGTCAAGCCATGCGGCAGAAGCACCTGCAATTCAACAAAGCGGTCATGAGC
EST: gi|208354175|gb|DC957409.1|DC957409
EST:     GCGTGGAGGATCTCTATCGCGCTAATCATACTCACCAGACCTACGATTTC                         GGTCAAGCCATGCGGCAGAAGCACCTGCAATTCAACAAAGCGGTCATGAGC
genomic: GCGTGGAGGATCTCTATCGCGCTAATCATACTCACCAGACCTACGATTTCgtaagtggcg ... actattgcagGGTCAAGCCATGCGGCAGAAGCACCTGCAATTCAACAAAGCGGTCATGAGC
EST: gi|208370394|gb|DC931806.1|DC931806
EST:     GCGTGGAGGATCTCTATCGCGCTAATCATACTCACCAGACCTACGATTTC                         GGTCAAGCCATGCGGCAGAAGCACCTGCAATTCAACAAAGCGGTCATGAGC
genomic: GCGTGGAGGATCTCTATCGCGCTAATCATACTCACCAGACCTACGATTTCgtaagtggcg ... actattgcagGGTCAAGCCATGCGGCAGAAGCACCTGCAATTCAACAAAGCGGTCATGAGC
EST: gi|208365296|gb|DC950767.1|DC950767
EST:     GCGTGGAGGATCTCTATCGCGCTAATCATACTCACCAGACCTACGATTTC                         GGTCAAGCCATGCGGCAGAAGCACCTGCAATTCAACAAAGCGGTCATGAGC
genomic: GCGTGGAGGATCTCTATCGCGCTAATCATACTCACCAGACCTACGATTTCgtaagtggcg ... actattgcagGGTCAAGCCATGCGGCAGAAGCACCTGCAATTCAACAAAGCGGTCATGAGC
EST: gi|208372504|gb|DC940779.1|DC940779
EST:     GCGTGGAGGATCTCTATCGCGCTAATCATACTCACCAGACCTACGATTTC                         GGTCAAGCCATGCGGCAGAAGCACCTGCAATTCAACAAAGCGGTCATGAGC
genomic: GCGTGGAGGATCTCTATCGCGCTAATCATACTCACCAGACCTACGATTTCgtaagtggcg ... actattgcagGGTCAAGCCATGCGGCAGAAGCACCTGCAATTCAACAAAGCGGTCATGAGC
EST: gi|208389871|gb|DC937702.1|DC937702
EST:     GCGTGGAGGATCTCTATCGCGCTAATCATACTCACCAGACCTACGATTTC                         GGTCAAGCCATGCGGCAGAAGCACCTGCAATTCAACAAAGCGGTCATGAGC
genomic: GCGTGGAGGATCTCTATCGCGCTAATCATACTCACCAGACCTACGATTTCgtaagtggcg ... actattgcagGGTCAAGCCATGCGGCAGAAGCACCTGCAATTCAACAAAGCGGTCATGAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtgccatgggaatggattttcaatctcatctggtggaatcaagtactattgcagGGTCAAGCCATGCGGCAGAAGCACCTGCAATTCAACAAAGCGGTCATGAGCATCTGGGATTGTTGCGAGCTTCTGAACGAGTGCGTAGATGACAGCGATC
                attttcaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtggcgccaattcgattaaataatatgccttatttttgaatcccacatcgagtgccatgggaatggattttcaatctcatctggtggaatcaagtactattgcagGGTCAAGCCATGCGGCAGAAGCACCTGCAATTCAACAAAGCGGTCATGAGCATCTGGGATTGTTGCGAGCTTCTGAACGAGTGCGTAGATGACAGCGATC

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