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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