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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagctgtagtacctatctgagtgccttcttgctctaatgtttgttgttctcgagcacctatttcgctccatttcgtcaattaggtagaagtttaaccagaggcatgaactaaccttgttaaccttttcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGAACTGTTATTGCCTTGGTGAAGGAGCTGAAGAACATGTCAAAGGAG

Basic information

species Physcomitrella patens
transcript PP1S15_485V6.2
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|162182315|gb|FC357186.1|FC357186
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
EST: gi|162250146|gb|FC427871.1|FC427871
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
EST: gi|162153515|gb|FC329609.1|FC329609
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
EST: gi|162150983|gb|FC327879.1|FC327879
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
EST: gi|162183969|gb|FC359339.1|FC359339
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
EST: gi|208364523|gb|DC930913.1|DC930913
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGANGGTGTCAAG                         GTTGTCGCANCAGNAGCCAACCCAGTTC
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTC
EST: gi|162155281|gb|FC331218.1|FC331218
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
EST: gi|162166168|gb|FC343411.1|FC343411
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
EST: gi|67507453|gb|BJ940335.1|BJ940335
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAAGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
EST: gi|162153382|gb|FC329892.1|FC329892
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
EST: gi|162175371|gb|FC352297.1|FC352297
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
EST: gi|162171512|gb|FC347814.1|FC347814
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
EST: gi|162157139|gb|FC333709.1|FC333709
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
EST: gi|162180842|gb|FC358343.1|FC358343
EST:     CCGAGGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
EST: gi|162173824|gb|FC349416.1|FC349416
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
EST: gi|162256596|gb|FC432906.1|FC432906
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
EST: gi|67574539|gb|BJ947363.1|BJ947363
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
EST: gi|162150359|gb|FC326631.1|FC326631
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
EST: gi|162255427|gb|FC431841.1|FC431841
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
EST: gi|162154271|gb|FC330402.1|FC330402
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aggtagaagtttaaccagaggcatgaactaaccttgttaaccttttcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGAACTGTTATTGCCTTGGTGAAGGAGCTGAAGAACATGTCAAAGGAG
                                        ccttttcgt  CT-rich tract
 aagtttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagctgtagtacctatctgagtgccttcttgctctaatgtttgttgttctcgagcacctatttcgctccatttcgtcaattaggtagaagtttaaccagaggcatgaactaaccttgttaaccttttcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGAACTGTTATTGCCTTGGTGAAGGAGCTGAAGAACATGTCAAAGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG