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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTATGCATTGAGCTTTTACATCCCATGGGACAGGACGGCCCAGTTGCTGAATTTCTCAAGAACAATCCCAACGGTGGCATCCATCACGTCTCATTTGCGgtatggttctacccatcctgtggaacacatttgtaatttgttctcaacaatttgcaagtctaacttatcaccaatctgtatttcag

Basic information

species Physcomitrella patens
transcript PP1S9_16V6.3
intron # 4
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|162188463|gb|FC365061.1|FC365061
EST:     GAACAATCCCAACGGTGGCATCCATCACGTCTCATTTGCG                         GTCGATAATATCAACTCAGCAGCATGCTACATAGGTGAAGCAGGCGTGGGA
genomic: GAACAATCCCAACGGTGGCATCCATCACGTCTCATTTGCGgtatggttct ... tgtatttcagGTCGATAATATCAACTCAGCAGCATGCTACATAGGTGAAGCAGGCGTGGGA
EST: gi|162170966|gb|FC346657.1|FC346657
EST:     ATCACGTCTCATTTGCG                         GTCGATAATATCAACTCAGCAGCATGCTACATAGGTGAAGCAGGCGTGGGA
genomic: ATCACGTCTCATTTGCGgtatggttct ... tgtatttcagGTCGATAATATCAACTCAGCAGCATGCTACATAGGTGAAGCAGGCGTGGGA
EST: gi|7067293|gb|AW497148.1|AW497148
EST:     AATTTCTCAAGAACAATCCCAACGGTGGCATCCATCACGTCTCATTTGCG                         GTCGATAATATCAACTCAGCAGCATGCTACATAGGTGAAGCAGGCGTGGGA
genomic: AATTTCTCAAGAACAATCCCAACGGTGGCATCCATCACGTCTCATTTGCGgtatggttct ... tgtatttcagGTCGATAATATCAACTCAGCAGCATGCTACATAGGTGAAGCAGGCGTGGGA
EST: gi|162183245|gb|FC360395.1|FC360395
EST:     AATTTCTCAAGAACAATCCCAACGGTGGCATCCATCACGTCTCATTTGCG                         GTCGATAATATCAACTCAGCAGCATGCTACATAGGTGAAGCAGGCGTGGGA
genomic: AATTTCTCAAGAACAATCCCAACGGTGGCATCCATCACGTCTCATTTGCGgtatggttct ... tgtatttcagGTCGATAATATCAACTCAGCAGCATGCTACATAGGTGAAGCAGGCGTGGGA
EST: gi|162206596|gb|FC382354.1|FC382354
EST:     AATTTCTCAAGAACAATCCCAACGGTGGCATCCATCACGTCTCATTTGCG                         GTCGATAATATCAACTCAGCAGCATGCTACATAGGTGAAGCAGGCGTGGGA
genomic: AATTTCTCAAGAACAATCCCAACGGTGGCATCCATCACGTCTCATTTGCGgtatggttct ... tgtatttcagGTCGATAATATCAACTCAGCAGCATGCTACATAGGTGAAGCAGGCGTGGGA
EST: gi|162231984|gb|FC409058.1|FC409058
EST:     AATTTCTCAAGAACAATCCCAACGGTGGCATCCATCACGTCTCATTTGCG                         GTCGATAATATCAACTCAGCAGCATGCTACATAGGTGAAGCAGGCGTGGGA
genomic: AATTTCTCAAGAACAATCCCAACGGTGGCATCCATCACGTCTCATTTGCGgtatggttct ... tgtatttcagGTCGATAATATCAACTCAGCAGCATGCTACATAGGTGAAGCAGGCGTGGGA
EST: gi|18374583|gb|BJ206161.1|BJ206161
EST:     AATTTCTCAAGAACAATCCCAACGGTGGCATCCATCACGTCTCATTTGCG                         GTCGATAATATCAACTCAGCAGCATGCTACATAGGTGAAGCAGGCGTGGGA
genomic: AATTTCTCAAGAACAATCCCAACGGTGGCATCCATCACGTCTCATTTGCGgtatggttct ... tgtatttcagGTCGATAATATCAACTCAGCAGCATGCTACATAGGTGAAGCAGGCGTGGGA
EST: gi|161979081|gb|EE296290.1|EE296290
EST:     AATTTCTCGAGAACAATCCCAACGGTGGCATCCATCACGTCTCATTTGCG                         GTCGATAATATCAACTCAGCAGCATGCTACATANGTGAAGCAGGCGTGGGA
genomic: AATTTCTCAAGAACAATCCCAACGGTGGCATCCATCACGTCTCATTTGCGgtatggttct ... tgtatttcagGTCGATAATATCAACTCAGCAGCATGCTACATAGGTGAAGCAGGCGTGGGA
EST: gi|162222954|gb|FC399611.1|FC399611
EST:     ATTTTCTCAAGAACAATCCCAACGGTGGCATCCATCACGTCTCATTTGCG                         GTCGATAATATCAACTCAGCAGCATGCTACATAGGTGAAGCAGGCGTGGGA
genomic: A-TTTCTCAAGAACAATCCCAACGGTGGCATCCATCACGTCTCATTTGCGgtatggttct ... tgtatttcagGTCGATAATATCAACTCAGCAGCATGCTACATAGGTGAAGCAGGCGTGGGA
EST: gi|162245345|gb|FC423015.1|FC423015
EST:     CAAGAACATTCCCAACGGTGGCATCCATCACGTCTCATTTGCG                         GTCGATAATATCAACTCAGCAGCATGCTACATAGGTGAAGCAGGCGTGGGA
genomic: CAAGAACAATCCCAACGGTGGCATCCATCACGTCTCATTTGCGgtatggttct ... tgtatttcagGTCGATAATATCAACTCAGCAGCATGCTACATAGGTGAAGCAGGCGTGGGA
EST: gi|162188462|gb|FC365060.1|FC365060
EST:     GCATCCATCACGTCTCATTTGCG                         GTCGATAATATCAACTCAGCAGCATGCTACATAGGTGAAGCAGGCGTGGGA
genomic: GCATCCATCACGTCTCATTTGCGgtatggttct ... tgtatttcagGTCGATAATATCAACTCAGCAGCATGCTACATAGGTGAAGCAGGCGTGGGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGTATGCATTGAGCTTTTACATCCCATGGGACAGGACGGCCCAGTTGCTGAATTTCTCAAGAACAATCCCAACGGTGGCATCCATCACGTCTCATTTGCGgtatggttctacccatcctgtggaacacatttgtaatttgttctcaacaatttgcaagtctaacttatcaccaatctgtatttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC