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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttcacgtcttcaaaggcattctcttgtgttgaaggattttctagatccgcatagtttaagggatccgccaagttttccttattttttatggttcatgcagGTGTGGCAACATAAATTGGGCAAAGCGCACAAAATGTAACATCTGCAACACTGCCAAACCTGGTTTCAATGAAGGCGGTGCCAG

Basic information

species Physcomitrella patens
transcript PP1S148_65V6.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S148_65V6.2 (Physcomitrella patens), 3'ss of exon 3
lower sequence: LOC_Os07g19560.2 (Oryza sativa), 3'ss of exon 4
ttcacgtcttcaaaggcattctcttgtgttgaaggatttt--ctagatcc-gcatagtttaagggatccgccaagttttccttattttttatggt-tcatgcagGTGTGGCAACATAAATTGGGCAAAGCGCACAAAATGTAACATCTGCAACACTGCCAAACCTGGTTTCAATGAAGGCGGTGCCAG
        || |   ||| |       |   || | || |   |  | |  | | | | | |   | ||||  |  |     || ||  | |  | |  | |||||||||||||||||||||||||||||| |  |||||||| ||||| |||||  |||| || |||  ||||||||| ||||  ||
----taaattgatctgcagtaataaaagcacaatggttatggttgtaccttgtacaatgttataaaaccgcttatgtgatgatacttcatttaatgttttccagGTGTGGCAACATAAATTGGGCAAAGCGGATGAAATGTAATATCTGTAACACCACCAAGCCAGGTCACAATGAAGGTGGTGTTAG

upper sequence: PP1S148_65V6.2 (Physcomitrella patens), 3'ss of exon 3
lower sequence: LOC_Os09g12800.1 (Oryza sativa), 3'ss of exon 4
ttcacgtcttcaaaggcattctcttgtgttgaaggattttc--tagatccgcatagttta--agggatccgc-caagttttccttattttttatggttcatgcagGTGTGGCAACATAAATTGGGCAAAGCGCACAAAATGTAACATCTGCAACACTGCCAAACCTGGTTTCAATGAAGGCGGTGCCAG
      |   | ||     ||    ||  | || |  |     | |  ||   || | ||  |   | ||||  | ||  |  | | |  ||     |  | |||||||||||||||||||||||||||||| |  |||||||| ||||| |||||  | || || |||  ||||||||| ||||  ||
-----attgactaaattgatcaacagtaataaaagcatcatggttgtaccatgtactatattataaaaccgcatatgtgatgataaataatttaatgttttccagGTGTGGCAACATAAATTGGGCAAAGCGGATGAAATGTAATATCTGTAACACCACTAAGCCAGGTCACAATGAAGGTGGTGTGAG

upper sequence: PP1S148_65V6.2 (Physcomitrella patens), 3'ss of exon 3
lower sequence: AC233865.1_FGT006 (Zea mays), 3'ss of exon 4
ttcacgtcttcaaaggcattctct-tgtgttgaaggatttt----ctagatccgcatagtttaagggatccgccaagttttccttattttttatggttcatg--cagGTGTGGCAACATAAATTGGGCAAAGCGCACAAAATGTAACATCTGCAACACTGCCAAACCTGGTTTCAATGAAGGCGGTGCCAG
        || |  | ||  |||| ||| || |   |||||    ||  ||  | |||   |    |          |  |    |       |  ||  ||  ||||||||||||||| || ||||| ||||| || |||||||| || || |||||  |||| ||||||  ||||||||| ||||  ||
-------tttaactgccaccctctatgtcttaagcaatttttatgcttcattagtataaacttgctgtcttatatgatgatatgaacccaacttcatttgtgtccagGTGTGGCAACATCAACTGGGCTAAGCGGACCAAATGTAATATATGTAACACCTCCAAGCCTGGTACCAATGAAGGTGGTGTGAG

upper sequence: PP1S148_65V6.2 (Physcomitrella patens), 3'ss of exon 3
lower sequence: GLYMA12G03260.1 (Glycine max), 3'ss of exon 3
--ttcacgtcttcaaaggcattctcttgtgt-tgaaggattttctagatccgcatagtttaagggatccgccaagttttccttattttttatggttcatgcagGTGTGGCAACATAAATTGGGCAAAGCGCACAAAATGTAACATCTGCAACACTGCCAAACCTGGTTTCAATGAAGGCGGTGCCAG
  | ||| || |        || | |||| | || ||||||||  | ||    | | ||||| | ||      | |||  | | |||||| |  ||     |||||||| || || |||||||||||||| || ||||| || |||||||||||    || |||||    ||||| || ||||  ||
tttgcacatcatgtgtacacttttgttgtttatgcaggatttttaaaata---aaaatttaatgtatgaattgactttctcatgtttttttttttttgcttagGTGTGGGAATATCAATTGGGCAAAGCGGACTAAATGCAATATCTGCAACACAAATAAGCCTGGGCATAATGAGGGTGGTGTAAG

upper sequence: PP1S148_65V6.2 (Physcomitrella patens), 3'ss of exon 3
lower sequence: Vv01s0010g01410.t01 (Vitis vinifera), 3'ss of exon 3
ttcacgtcttcaaaggcattctcttgtgttgaaggattttctagat-ccgcatagtttaagggatcc---gccaagttttccttattttttatggttcatgcagGTGTGGCAACATAAATTGGGCAAAGCGCACAAAATGTAACATCTGCAACACTGCCAAACCTGGTTTCAATGAAGGCGGTGCCAG
    |   || |       | | ||       | | |    || |   | ||||  |||  |  |           | ||||||||  ||    |||  | ||||||||||||||| || ||||||||||| ||||| || || || ||||||||    || |||||    |||||||| ||||  ||
----caatttaatccatgatgttttaaaaaatatggtcaaataaacatcacataaattattgcttttcatattgcttcttccttatgattatgagttgtttcagGTGTGGCAACATTAACTGGGCAAAGCGGACAAAGTGCAATATATGCAACACCAATAAGCCTGGCCATAATGAAGGTGGTGTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccgcatagtttaagggatccgccaagttttccttattttttatggttcatgcagGTGTGGCAACATAAATTGGGCAAAGCGCACAAAATGTAACATCTGCAACACTGCCAAACCTGGTTTCAATGAAGGCGGTGCCAG
                           ttttccttatttttta  TA-rich tract