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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcattggctaacatatttacttgagactcaaagttttgacagaacgcatgccatggacagtcggaacgtactatattgaatcatttctgttattgtgcagTATGCACCGACAACCAGAGCACGTCATGACCTTCTTGTTGGCTGAGTTGGGTACGAATGGATCGTTGGACGGACAACAGCGTCTGGTTGTTAAAGGTCGA

Basic information

species Physcomitrella patens
transcript PP1S93_178V6.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S93_178V6.2 (Physcomitrella patens), 3'ss of exon 5
lower sequence: EFJ28838 (Selaginella moellendorffii), 3'ss of exon 6
tcattggctaacatatttacttgagactcaaagttttgacagaacgcatgccatggacagtcggaacgtactatattgaatcatttctgttattgtgcagTATGCACCGACAACCAGAGCACGTCATGACCTTCTTGTTGGCTGAGTTGGGTACGAATGGATCGTTGGACGGACAACAGCGTCTGGTTGTTAAAGGTCGA
                               |   | | |   || ||||||| ||| ||| | |      | | |   ||  ||  |  | |  ||||| |||||||||||||| |||||||||||| | ||  |  | || ||| |||| ||||  || ||| | |||||||| ||||| || ||||| || || |||
-----------------------------gtaagctcggccatac-catgccacggagagttgta------tttctcacattcttctttctttcttgcagAATGCACCGACAACCCGAGCACGTCATGGCTTTTCTCCTCGCCGAGCTGGGAACGAGCGGCTCGCTCGACGGACAGCAGCGACTTGTTGTCAAGGGGCGA
















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|37839174|gb|BJ597182.1|BJ597182
EST:     GAAGGAACCAAGAAAACCGTTTTTGTCAACTTTATGGACCTTTGCAAGAC                         TATGCACCGACAACCAGAGCACGTCATGACCTTCTTGTTGGCTGAGTTGGG
genomic: GAAGGAACCAAGAAAACCGTTTTTGTCAACTTTATGGACCTTTGCAAGACgtatgtgtcc ... tattgtgcagTATGCACCGACAACCAGAGCACGTCATGACCTTCTTGTTGGCTGAGTTGGG
EST: gi|208388404|gb|DC957042.1|DC957042
EST:     GAAGGAACCAAGAAAACCGTTTTTGTCAACTTTATGGACCTTTGCAAGAC                         TATGCACCGACAACCAGAGCACGTCATGACCTTCTTGTTGGCTGAGTTGGG
genomic: GAAGGAACCAAGAAAACCGTTTTTGTCAACTTTATGGACCTTTGCAAGACgtatgtgtcc ... tattgtgcagTATGCACCGACAACCAGAGCACGTCATGACCTTCTTGTTGGCTGAGTTGGG
EST: gi|208383473|gb|DC923625.1|DC923625
EST:     CTTTGCAAGAC                         TATGCACCGACAACCAGAGCACGTCATGACCTTCTTGTTGGCTGAGTTGGG
genomic: CTTTGCAAGACgtatgtgtcc ... tattgtgcagTATGCACCGACAACCAGAGCACGTCATGACCTTCTTGTTGGCTGAGTTGGG
EST: gi|18333977|gb|BJ165993.1|BJ165993
EST:     TTGTCAACTTTATGGACCTTTGCAAGAC                         TATGCACCGACAACCAGAGCACGTCATGACCTTCTTGTTGGCTGAGTTGGG
genomic: TTGTCAACTTTATGGACCTTTGCAAGACgtatgtgtcc ... tattgtgcagTATGCACCGACAACCAGAGCACGTCATGACCTTCTTGTTGGCTGAGTTGGG
EST: gi|162250610|gb|FC428201.1|FC428201
EST:     GAAGGAACCAAGAAAACCGTTTTTGTCAACTTTATGGACCTTTGCAAGAC                         TATGCACCGACAACCAGAGCACGTCATGACCTTCTTGTTGGCTGAGTTGGG
genomic: GAAGGAACCAAGAAAACCGTTTTTGTCAACTTTATGGACCTTTGCAAGACgtatgtgtcc ... tattgtgcagTATGCACCGACAACCAGAGCACGTCATGACCTTCTTGTTGGCTGAGTTGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcatgccatggacagtcggaacgtactatattgaatcatttctgttattgtgcagTATGCACCGACAACCAGAGCACGTCATGACCTTCTTGTTGGCTGAGTTGGGTACGAATGGATCGTTGGACGGACAACAGCGTCTGGTTGTTAAAGGTCGA
                                      tttctgtt  CT-rich tract
                          tatattgaatcattt  TA-rich tract