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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATGAGCGCCACTCACAGCAATGGCACCGATTGCGTGCCCTTCCACCGATCGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatagtccgtctatttatcgagggtcttgcatgcccacattttacaggacttacttctcacaggatcggtatgtgttgtag

Basic information

species Physcomitrella patens
transcript PP1S76_8V6.1
intron # 1
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|208377393|gb|DC906648.1|DC906648
EST:     CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAG                         GTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
genomic: CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatag ... tgtgttgtagGTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
EST: gi|100412613|gb|BY974821.1|BY974821
EST:     CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAG                         GTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
genomic: CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatag ... tgtgttgtagGTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
EST: gi|18375447|gb|BJ207025.1|BJ207025
EST:     CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAG                         GTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
genomic: CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatag ... tgtgttgtagGTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
EST: gi|162249661|gb|FC426801.1|FC426801
EST:     CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAG                         GTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
genomic: CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatag ... tgtgttgtagGTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
EST: gi|18368462|gb|BJ200547.1|BJ200547
EST:     CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAG                         GTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
genomic: CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatag ... tgtgttgtagGTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
EST: gi|100393326|gb|BY989824.1|BY989824
EST:     CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAG                         GTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
genomic: CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatag ... tgtgttgtagGTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
EST: gi|67571509|gb|BJ944333.1|BJ944333
EST:     CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAG                         GTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
genomic: CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatag ... tgtgttgtagGTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
EST: gi|100375234|gb|BY948810.1|BY948810
EST:     CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAG                         GTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
genomic: CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatag ... tgtgttgtagGTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
EST: gi|100396545|gb|BY990178.1|BY990178
EST:     CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAG                         GTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
genomic: CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatag ... tgtgttgtagGTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
EST: gi|100432068|gb|BY978649.1|BY978649
EST:     CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAG                         GTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
genomic: CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatag ... tgtgttgtagGTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
EST: gi|100360599|gb|BY984199.1|BY984199
EST:     CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAG                         GTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
genomic: CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatag ... tgtgttgtagGTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
EST: gi|67716232|gb|BJ966492.1|BJ966492
EST:     CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAG                         GTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
genomic: CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatag ... tgtgttgtagGTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
EST: gi|208383670|gb|DC907061.1|DC907061
EST:     CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAG                         GTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
genomic: CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatag ... tgtgttgtagGTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
EST: gi|100362831|gb|BY947550.1|BY947550
EST:     CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAG                         GTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
genomic: CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatag ... tgtgttgtagGTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
EST: gi|18329187|gb|BJ161193.1|BJ161193
EST:     CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAG                         GTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
genomic: CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatag ... tgtgttgtagGTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
EST: gi|100391024|gb|BY953034.1|BY953034
EST:     CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAG                         GTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
genomic: CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatag ... tgtgttgtagGTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
EST: gi|162183972|gb|FC359342.1|FC359342
EST:     CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAG                         GTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
genomic: CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatag ... tgtgttgtagGTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
EST: gi|18369484|gb|BJ201571.1|BJ201571
EST:     CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAG                         GTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
genomic: CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatag ... tgtgttgtagGTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
EST: gi|100387996|gb|BY988469.1|BY988469
EST:     CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAG                         GTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
genomic: CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatag ... tgtgttgtagGTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
EST: gi|162154400|gb|FC330207.1|FC330207
EST:     CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAG                         GTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
genomic: CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatag ... tgtgttgtagGTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
EST: gi|100445704|gb|CJ970003.1|CJ970003
EST:     CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAG                         GTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
genomic: CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatag ... tgtgttgtagGTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
EST: gi|162258357|gb|FC434284.1|FC434284
EST:     CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAG                         GTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
genomic: CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatag ... tgtgttgtagGTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
EST: gi|100358802|gb|BY946698.1|BY946698
EST:     CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAG                         GTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
genomic: CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatag ... tgtgttgtagGTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
EST: gi|162157552|gb|FC333810.1|FC333810
EST:     CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAG                         GTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
genomic: CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatag ... tgtgttgtagGTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
EST: gi|100437296|gb|BY961449.1|BY961449
EST:     CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAG                         GTGGAAGGCGCTGCGTACGGGGGAGGTCGGGAGACAAACATTTGGGACACA
genomic: CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatag ... tgtgttgtagGTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
EST: gi|100452031|gb|CJ975065.1|CJ975065
EST:     CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAG                         GTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
genomic: CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatag ... tgtgttgtagGTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
EST: gi|67719020|gb|BJ969279.1|BJ969279
EST:     CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAG                         GTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
genomic: CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatag ... tgtgttgtagGTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
EST: gi|100376261|gb|BY986100.1|BY986100
EST:     CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAG                         GTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
genomic: CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatag ... tgtgttgtagGTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
EST: gi|100430239|gb|BY959769.1|BY959769
EST:     CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAG                         GTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
genomic: CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatag ... tgtgttgtagGTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
EST: gi|208380336|gb|DC907661.1|DC907661
EST:     CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAG                         GTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
genomic: CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatag ... tgtgttgtagGTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
EST: gi|100417188|gb|BY957211.1|BY957211
EST:     CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAG                         GTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
genomic: CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatag ... tgtgttgtagGTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
EST: gi|67704515|gb|BJ964748.1|BJ964748
EST:     CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAG                         GTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
genomic: CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatag ... tgtgttgtagGTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
EST: gi|67718927|gb|BJ969186.1|BJ969186
EST:     CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAG                         GTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
genomic: CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatag ... tgtgttgtagGTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
EST: gi|100418352|gb|BY957377.1|BY957377
EST:     CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAG                         GTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
genomic: CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatag ... tgtgttgtagGTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
EST: gi|100365284|gb|BY966902.1|BY966902
EST:     CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAG                         GTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA
genomic: CGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatag ... tgtgttgtagGTGGAAGGCGCTGCGTACGAGGGAGGTCGGGAGACAAACATTTGGGACACA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AATGAGCGCCACTCACAGCAATGGCACCGATTGCGTGCCCTTCCACCGATCGCTGTTCCCGGACAAATTCGTGTTTGGGGCTGCCACGGCTGCTTTCCAGgttaggatagtccgtctatttatcgagggtcttgcatgcccacattttacaggacttacttctcacaggatcggtatgtgttgtag

- - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT