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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gttagctcgttgtgtgtgttaatgccagaaacaaacacagcatgaaagtggacaagtattaatgttttgatttagcactctgttgtgtatctacttgcagCTTGGACCAGAGTATGCAAGATACTGTGGCATTGAGGCATTAGAACCGCTGGGAATCTTCCTACCAGGCGACGTGAACTACCCAGGCGGGGCTTTGTTCG

Basic information

species Physcomitrella patens
transcript PP1S215_109V6.3
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S215_109V6.3 (Physcomitrella patens), 3'ss of exon 6
lower sequence: AT1G76570.1 (Arabidopsis thaliana), 3'ss of exon 5
gttagctcgttgtgtgtgttaatgccagaaacaaacacagcatgaaagtggacaagtattaatgttttgatttagcactctgttgtgtatctact-tgcagCTTGGACCAGAGTATGCAAGATACTGTGGCATTGAGGCATTAGAACCGCTGGGAATCTTCCTACCAGGCGACGTGAACTACCCAGGCGGGGCTTTGTTCG
                           | || | ||   |        |   |   | | |    |||   |||   |      || | | | || | ||| | ||||| || || ||||||||||||||||||||||| ||||| || |||||||| | | | ||||| ||| | ||||| || || ||| |  | || |
---------------------------gtaatatacctcgagacttgctttccttatctcatacatttctcttataccaaaaacgtttttttgctatacagGTAGGACCGGAATACGCAAGATACTGTGGCATTGAGGCCTTAGAGCCACTGGGAATATACTTGCCAGGAGACATTAACTATCCTGGAGGGACGCTTTTTG

upper sequence: PP1S215_109V6.3 (Physcomitrella patens), 3'ss of exon 6
lower sequence: EFJ22688 (Selaginella moellendorffii), 3'ss of exon 4
gttagctcgttgtgtgtgttaatgccagaaacaaacacagcatgaaagtggacaagtattaatgttttgatttagcactctgttgtgtatctacttgcagCTTGGACCAGAGTATGCAAGATACTGTGGCATTGAGGCATTAGAACCGCTGGGAATCTTCCTACCAGGCGACGTGAACTACCCAGGCGGGGCTTTGTTCG
                                |||  |  | |     | | |||||  |     |  |||  |  |||    | || ||| |    ||| |||| ||||||||||| || ||||| ||||| || ||| |||||||||| |||||||  || || || ||| | ||||| || || || |   |||| |
------------------------------gtaaat-cgtcctttttctcgtcaagttcttccaatc-gatacaa-actaatctatg-atccaa--acagGTTGGTCCAGAGTATGCCAGGTACTGCGGCATCGAAGCACTAGAACCGCTAGGAATCTATCTTCCCGGAGACATCAACTATCCGGGAGGAGTCCTGTTTG

upper sequence: PP1S215_109V6.3 (Physcomitrella patens), 3'ss of exon 6
lower sequence: EFJ13067 (Selaginella moellendorffii), 3'ss of exon 4
gttagctcgttgtgtgtgttaatgccagaaacaaacacagcatgaaagtggacaagtattaatgttttgatttagcactctgttgtgtatctacttgcagCTTGGACCAGAGTATGCAAGATACTGTGGCATTGAGGCATTAGAACCGCTGGGAATCTTCCTACCAGGCGACGTGAACTACCCAGGCGGGGCTTTGTTCG
                                |||  |  | |     | | |||||  |  |  |  ||| ||  |||    | || ||| |    ||| |||| ||||||||||| || ||||| ||||| || ||| |||||||||| |||||||  || || || ||| | ||||| || || || |   |||| |
------------------------------gtaaat-cgtcctttttctagtcaagttcttctaatc-gatataa-actaatctatg-atccaa--acagGTTGGTCCAGAGTATGCCAGGTACTGCGGCATCGAAGCACTAGAACCGCTAGGAATCTATCTTCCCGGAGACATCAACTATCCGGGAGGAGTCCTGTTTG

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|208373918|gb|DC944651.1|DC944651
EST:     CTGGTGCTCAAGGAATTCTTGTTATTGCATTCTGTCAAGTCATTCTCATG                         CTTGGACCAGAGTATGCAAGATACTGTGGCATTGAGGCATTAGAACCGCTG
genomic: CTGGTGCTCAAGGAATTCTTGTTATTGCATTCTGTCAAGTCATTCTCATGgtattatttc ... ctacttgcagCTTGGACCAGAGTATGCAAGATACTGTGGCATTGAGGCATTAGAACCGCTG
EST: gi|162262567|gb|FC439753.1|FC439753
EST:     CTGGTGCTCAAGGAATTCTTGTTATTGCATTCTGTCAAGTCATTCTCATG                         CTTGGACCAGAGTATGCAAGATACTGTGGCATTGAGGCATTAGAACCGCTG
genomic: CTGGTGCTCAAGGAATTCTTGTTATTGCATTCTGTCAAGTCATTCTCATGgtattatttc ... ctacttgcagCTTGGACCAGAGTATGCAAGATACTGTGGCATTGAGGCATTAGAACCGCTG
EST: gi|162276352|gb|FC452433.1|FC452433
EST:     CTGGTGCTCAAGGAATTCTTGTTATTGCATTCTGTCAAGTCATTCTCATG                         CTTGGACCAGAGTATGCAAGATACTGTGGCATGGAGGC
genomic: CTGGTGCTCAAGGAATTCTTGTTATTGCATTCTGTCAAGTCATTCTCATGgtattatttc ... ctacttgcagCTTGGACCAGAGTATGCAAGATACTGTGGCATTGAGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagtggacaagtattaatgttttgatttagcactctgttgtgtatctacttgcagCTTGGACCAGAGTATGCAAGATACTGTGGCATTGAGGCATTAGAACCGCTGGGAATCTTCCTACCAGGCGACGTGAACTACCCAGGCGGGGCTTTGTTCG
                                            tctactt  CT-rich tract
        aagtattaatgttttg  TA-rich tract