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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...catcacacagaatagtccactttttcctccctaaaataaagaacagtaaatttctacgcatactgagtggaagggacatttatgtgtgtgttcgcaacagATGGAACCCAGATGCAATTGTTTTCAACTCTTGGCAACAATACGGGACACCCAGCTACTGGGTTCAGCATTTCTTTAAAAACTCCAACGGTGCCGACCTT

Basic information

species Physcomitrella patens
transcript PP1S106_48V6.2
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S106_48V6.2 (Physcomitrella patens), 3'ss of exon 17
lower sequence: LOC_Os11g03734.1 (Oryza sativa), 3'ss of exon 10
catcacacagaatagtccactttttcctccctaaaataaagaacagtaaatttctacgcatactgagtggaagggacatttatgtgtgtgttcgcaa--cagATGGAACCCAGATGCAATTGTTTTCAACTCTTGGCAACAATACGGGACACCCAGCTACTGGGTTCAGCATTTCTTTAAAAACTCCAACGGTGCCGACCTT
            ||||  | |  |   |   ||   ||           |||    |   |  |   |    |  | ||| ||||||   |    ||  ||| |||||||||||||||||||| |||||||| |||||||| || || || || || || ||| | ||    |  ||     | || |  ||| | |   ||
----------gttagt--attcatggtttagtactttactttgtttaggattctagcatctgttctctctttgaca-attaatgtgtaaatctaaaaaccagCTGGAACCCAGATGCAATTGTCTTCAACTCCTGGCAACAGTATGGAACTCCTAGTTATTGGATGCAAACATATTTCCGTGAATCAAGTGGTTCTGTGATT

upper sequence: PP1S106_48V6.2 (Physcomitrella patens), 3'ss of exon 17
lower sequence: LOC_Os11g03780.2 (Oryza sativa), 3'ss of exon 15
catcacacagaatagtccactttttcctccctaaaataaagaacagtaaatttctacgcatactgagtggaagggacatttatgtgtgtgttcgcaacagATGGAACCCAGATGCAATTGTTTTCAACTCTTGGCAACAATACGGGACACCCAGCTACTGGGTTCAGCATTTCTTTAAAAACTCCAACGGTGCCGACCTT
        || |   |   ||||  | |   ||   |  |  |   |   | |  ||   | ||     |   |   |  | ||  |||| |     ||| |||||||||||||||||||| ||||| || |||||||| || || || || || || ||| | ||    |  ||     | || |  ||| | |   ||
-----gttagtacctttggctttgccttttttattttctaacattcttcttgttcacaagtgcttga--gtttgactagctctgaatgtgatgat--cagCTGGAACCCAGATGCAATTGTATTCAATTCCTGGCAACAGTATGGCACTCCTAGTTATTGGATGCAAACATATTTCCGTGAATCAAGTGGTTCTGTGATT

upper sequence: PP1S106_48V6.2 (Physcomitrella patens), 3'ss of exon 17
lower sequence: LOC_Os12g03480.1 (Oryza sativa), 3'ss of exon 13
catcacacagaatagtccactttttcctccctaaaataaagaacagtaa-atttctacgcatactgagtggaagggacatttatgtgtgtgttcgcaacagATGGAACCCAGATGCAATTGTTTTCAACTCTTGGCAACAATACGGGACACCCAGCTACTGGGTTCAGCATTTCTTTAAAAACTCCAACGGTGCCGACCTT
        || |||       || | ||  ||    | ||| |   ||  || | |   |   |||| |  |  |   || |||   |||| |  |  ||| |||||||||||||| ||||| |||||||| |||||||| || || || || || || ||| | |||   |  ||     | || | ||||||     ||
-----gttagtatacatggtcttatactttctttgttcaaggattctagcatctgtttcctctctgact--attgctaatgtataaatgtgataac--cagCTGGAACCCAGATGCGATTGTCTTCAACTCCTGGCAACAGTATGGAACTCCTAGTTATTGGATGCAGACATATTTCCGTGAATCAAGCGGTGCTATGATT

upper sequence: PP1S106_48V6.2 (Physcomitrella patens), 3'ss of exon 17
lower sequence: GLYMA03G27460.2 (Glycine max), 3'ss of exon 14
catcacacagaatagtccactttttcctccctaa------aataaagaacagtaaatttctacgcatactgagtggaagggacatttatgtgtgtgttcg-caacagATGGAACCCAGATGCAATTGTTTTCAACTCTTGGCAACAATACGGGACACCCAGCTACTGGGTTCAGCATTTCTTTAAAAACTCCAACGGTGCCGACCTT
        | |||  |     || |  |    |       | ||||  |     ||||  | | | |  ||  |  ||   | |||  |||   | |  | ||  || |||||||||||||||||||| |||||||| |  || |  || || || || ||||| ||||| ||    || ||   | | || |  || ||    |||
-----agtaaaatgttttcaattctaatgttaaggtggttactaaaatatgtagaattgttcctcctgatggcta-aactaatatt-gtgtcaatttctgtcattagGTGGAACCCAGATGCAATTGTATTCAACTCCTTTCAGCTCTATGGAACTCCTAGCTATTGGGTGCAAGTATTTTTCTCAGAGTCGAGTGGAGCAACACTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaaatttctacgcatactgagtggaagggacatttatgtgtgtgttcgcaacagATGGAACCCAGATGCAATTGTTTTCAACTCTTGGCAACAATACGGGACACCCAGCTACTGGGTTCAGCATTTCTTTAAAAACTCCAACGGTGCCGACCTT
                              acatttat  TA-rich tract