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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttttgtgatttgaaagttgttgctagcagtctatcgtgaacttgtagagaatagtaggcttacacatggtatgggttgacttatgcgatgcataaaaccacctgctcctccagGTTAAGAAGGTCGGGAAGGTTGTGCGCGCTATCTGCTTCATGAGCCATCCAATTCCAAATACTAGTGACTCTGATTCGGTTCAAATAATTCTGCCGCAAA

Basic information

species Physcomitrella patens
transcript PP1S100_23V6.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S100_23V6.1 (Physcomitrella patens), 3'ss of exon 9
lower sequence: EFJ11673 (Selaginella moellendorffii), 3'ss of exon 9
gtaatttttgtgatttgaaagttgttgctagcagtctatcgtgaacttgtagagaatagtaggcttacacatggtatgggttgacttatgcgatgcataaaaccacctgctcctccagGTTAAGAAGGTCGGGAAGGTTGTGCGCGCTATCTGCTTCATGAGCCATCCAATTCCAAATACTAGTGACTCTGATTCGGTTCAAATAATTCTGCCGCAAA
                                                |||||||  | |    ||  |  | || || |    |     |  ||   ||     | ||      ||||||  |||||||||||| ||||| || || || ||| |||||||||||||||| ||||| || |  || ||    || |||||| | || || || ||||
------------------------------------------------gtagagaggaat----ttgtat-tcgtttgtgccagcactctccctgacaaagtttgcttga-----cagGTTCGGAAGGTCGGGAAAGTTGTCCGGGCCATATGCATCATGAGCCATCCAATCCCAAACACGAACGATTCCTCGTCAGTTCAAGTTATCCTTCCCCAAA
















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|37840302|gb|BJ598310.1|BJ598310
EST:     CCGTGAAGGCCAAGAAAGTTGTTTGTGACCCTTCATATTTGCCCAATAAG                         GTTAAGAAGGTCGGGAAGGTTGT--GCGCTATCTGCTTCATGAGCCATCCA
genomic: CCGTGAAGGCCAAGAAAGTTGTTTGTGACCCTTCATATTTGCCCAATAAGgtaatttttg ... gctcctccagGTTAAGAAGGTCGGGAAGGTTGTGCGCGCTATCTGCTTCATGAGCCATCCA
EST: gi|67698955|gb|BJ959188.1|BJ959188
EST:     CCGTGAAGGCCAAGAAAGTTGTTTGTGACCCTTCATATTTGCCCAATAAG                         GTTAAGAAGGTCGGGAAGGTTGTGCGCGCTATCTGCTTCATGAGCCATCCA
genomic: CCGTGAAGGCCAAGAAAGTTGTTTGTGACCCTTCATATTTGCCCAATAAGgtaatttttg ... gctcctccagGTTAAGAAGGTCGGGAAGGTTGTGCGCGCTATCTGCTTCATGAGCCATCCA
EST: gi|162225722|gb|FC401864.1|FC401864
EST:     CCGTGAAGGCCAAGAAAGTTGTTTGTGACCCTTCATATTTGCCCAATAAG                         GTTAAGAAGGTCGGGAAGGTTGTGCGCGCTATCTGCTTCATGAGCCATCCA
genomic: CCGTGAAGGCCAAGAAAGTTGTTTGTGACCCTTCATATTTGCCCAATAAGgtaatttttg ... gctcctccagGTTAAGAAGGTCGGGAAGGTTGTGCGCGCTATCTGCTTCATGAGCCATCCA
EST: gi|18335062|gb|BJ167080.1|BJ167080
EST:     CCGTGAAGGCCAAGAAAGTTGTTTGTGACCCTTCATATTTGCCCAATAAG                         GTTAAGAAGGTCGGGAAGGTTGTGCGCGCTATCTGCTTCATGAGCCATCCA
genomic: CCGTGAAGGCCAAGAAAGTTGTTTGTGACCCTTCATATTTGCCCAATAAGgtaatttttg ... gctcctccagGTTAAGAAGGTCGGGAAGGTTGTGCGCGCTATCTGCTTCATGAGCCATCCA
EST: gi|162225721|gb|FC401863.1|FC401863
EST:     CCGTGAAGGCCAAGAAAGTTGTTTGTGACCCTTCATATTTGCNCAATAAG                         GTTAAGAAGGTCGGGAAGGTTGTGCGCGCTATCTGCTTCATGAGCCATCCA
genomic: CCGTGAAGGCCAAGAAAGTTGTTTGTGACCCTTCATATTTGCCCAATAAGgtaatttttg ... gctcctccagGTTAAGAAGGTCGGGAAGGTTGTGCGCGCTATCTGCTTCATGAGCCATCCA
EST: gi|37847853|gb|BJ605861.1|BJ605861
EST:     TGCCCAATAAG                         GTTAAGAAGGTCGGGAAGGTTGT--GCGCTATCTGCTTCATGAGCCATCCA
genomic: TGCCCAATAAGgtaatttttg ... gctcctccagGTTAAGAAGGTCGGGAAGGTTGTGCGCGCTATCTGCTTCATGAGCCATCCA
EST: gi|162159100|gb|FC334271.1|FC334271
EST:     GGCCAAGAAAGTTGTTTGTGACCCTTCATATTTGCCCAATAAG                         GTTAAGAAGGTCGGGAAGGTTGTGCGCGCTATCTGCTTCATGAGCCATCCA
genomic: GGCCAAGAAAGTTGTTTGTGACCCTTCATATTTGCCCAATAAGgtaatttttg ... gctcctccagGTTAAGAAGGTCGGGAAGGTTGTGCGCGCTATCTGCTTCATGAGCCATCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttacacatggtatgggttgacttatgcgatgcataaaaccacctgctcctccagGTTAAGAAGGTCGGGAAGGTTGTGCGCGCTATCTGCTTCATGAGCCATCCAATTCCAAATACTAGTGACTCTGATTCGGTTCAAATAATTCTGCCGCAAA
                                       ccacctgctcctcc  CT-rich tract
                                 ataaaa  TA-rich tract