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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttattttaagtctcatggtctcaccagtgctacctctttttgttccaatatgcaaatacattgtcattacagaactatgacatcgatttaaatctggaactttttagttatattcagtttacatatgattattcttttcgggaaacatgagtaatgttgttcttgtggttggtgtgctttactttgaagGTTGTGAGGCGTGAAATATGTGCAATGGTCACAAAAGGAACATTGACAGAAGGGGAGTCTCTGCTGGCAAATCCAGATCCATCATATCTATTTTCTGTGG

Basic information

species Oryza sativa
transcript LOC_Os09g24220.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os09g24220.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G421541_T02 (Zea mays), 3'ss of exon 7
gtttattttaagtctcatggtctcaccagtgctacc----tctttttgttccaatatgcaaatacattgtcattacagaactatgacatcgatttaaatctggaactttttagttatattcagtttacatatgattattct----tttcgggaaacatgagtaatgttgttcttgtggttggtgtgctttac--tttgaagGTTGTGAGGCGTGAAATATGTGCAATGGTCACAAAAGGAACATTGACAGAAGGGGAGTCTCTGCTGGCAAATCCAGATCCATCATATCTATTTTCTGTGG
|| |  || |  | ||||  | |||   |||  |      |  | || |   || ||||||||   ||   ||  || |  | |    |  ||||| ||    | ||||     ||| |||  |    ||    | |||        ||   ||  |||  |||  |    |   |  || |  ||||||||  | |||||||||| || ||||||||||||||| | ||||||||||||||| | | |||||| |||   || |||||||| |||||||| ||||| ||  | || ||| 
gtatgctt-agatttcatcatttcat-ggtgtcaatgaaattgtgttatgggaacatgcaaatgtgtta--atctcaaagttgtctgctgaatttagattgcaagctttagcaatat-ttctttccttattctgtaatttcaaaacatcttaaagtatgcataagataacgc---tattttgcatgctttaccctctgaagGTTGTCAGACGTGAAATATGTGCAGTAGTCACAAAAGGAACACTAATAGAAGGAGAGCACCTACTGGCAAACCCAGATCCTTCATACCTCCTGTCCGTGA

upper sequence: LOC_Os09g24220.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GLYMA19G40350.1 (Glycine max), 3'ss of exon 7
gtttattttaagtctcatggtctcaccagtgctacctctttttgttccaatatgcaaat---acattgtcattacagaactatgacatcgatttaaatctggaactttttagttatattcagtttacatatgattattcttttcgggaaacatgagtaatgttgttcttgtggttggtgtgctttactttgaagGTTGTGAGGCGTGAAATATGTGCAATGGTCACAAAAGGAACATTGACAGAAGGGGAGTCTCTGCTGGCAAATCCAGATCCATCATATCTATTTTCTGTGG
|| |  || |  |||||   || |   ||   |   | ||||| |||   | |     |    |||| |  |    |     |||  |   |||| ||||  |  || | |||||| ||    || |  |   |  |  |  | | |||||||  ||        |||     |   | |  ||| | ||  ||||||| ||||||||||||||| || |||| |||||||| ||||| ||||| |||||||  |||   ||||| |||||  |  ||||| || |  |  || 
gtctgatt-acatctcacaatcaccagagatgtcattgtttttattctgttttttgtgttgtgcattatactctgtgttgagtgatcttattttatatctttattttgtaagttattttt--cttgctaaccctagtgttgatagagaaacattggt-------ctctaactttgattttatttttccttctagGTTGTAAGGCGTGAAATATGTTCAGTGGTTACAAAAGGTACATTAACAGATGGGGAGTTGCTGTCAGCAAACCCAGAAGCTGCATATTTAATGGCCCTGA

upper sequence: LOC_Os09g24220.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GLYMA03G37750.1 (Glycine max), 3'ss of exon 4
gtttattttaagtctcatggtctcaccagtgctacctctttttgttccaatatgcaaatacattgt-cattaca----gaact--atga-catcgatttaaatctggaactttttagttatattcagtttacatatgattattcttttcgggaaacatgagtaatgttgttcttgtggttggtgtgctttactttgaagGTTGTGAGGCGTGAAATATGTGCAATGGTCACAAAAGGAACATTGACAGAAGGGGAGTCTCTGCTGGCAAATCCAGATCCATCATATCTATTTTCTGTGG
|| |  || |  |||||      |   ||   |   | ||||| |||   | |     |  ||||| | ||| |    || ||  ||||   | | |||| ||||  |  || | |||||| |||   || |  |   |  |  |  | | | |||||   |    |    ||| |  ||    | |||| | ||  ||||||| ||||||||||||||| || |||| |||||||| ||||| ||||| |||||||  |||   ||||| || ||  |  ||||| |  |  |  || 
gtctgatt-acatctcaccacaaccagagaagtcattgtttttattctc-tgtttttttgtattgtgccttatactctgagctgaatgaatcttgttttatatctttattttgtaagttattttc--cttgctaaccctagtgttgatagaggaacat---tggcctcaaacttttattt----ttcttttccttctagGTTGTAAGGCGTGAAATATGTTCAGTGGTTACAAAAGGTACATTAACAGATGGGGAGTTGCTGTCAGCAAACCCTGAAGCTGCATATTTGATGGCCCTGA

upper sequence: LOC_Os09g24220.1 (Oryza sativa), 3'ss of exon 7
lower sequence: Vv07s0005g01370.t01 (Vitis vinifera), 3'ss of exon 7
gtttattttaagtctcatggtctcaccagtgctacctctttttgttccaatatgcaaatacattgtcattacagaactatgacatcgatttaaatctggaactttttagttatattcagtttacatatgattattcttttcgggaaacatgagtaatgttgttcttgtggttggtgtgctttact----ttgaagGTTGTGAGGCGTGAAATATGTGCAATGGTCACAAAAGGAACATTGACAGAAGGGGAGTCTCTGCTGGCAAATCCAGATCCATCATATCTATTTTCTGTGG
                                                                                                |        |||||| | |    | |     |   ||||  |   || |  || ||  ||    | | | || |||     | |||  |    |||||||||||||  ||||||||||||||| |||||||||| |||||| | || ||||| |||   ||    || || || ||| | || || ||  |  | ||  
----------------------------------------------------------------------------------------------cttttcctcgcttagttttgtatgttattttacttggtatttctcatggtaggcaggaagaaaaaagat-tagtagttaacacgttttgttgtttttgaagGTTGTGAAACGTGAAATATGTGCAGTGGTCACAAAGGGAACACTAACTGAAGGCGAGATGCTATCAGCCAACCCTGATGCTTCTTACCTTATGGCAGTAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttcgggaaacatgagtaatgttgttcttgtggttggtgtgctttactttgaagGTTGTGAGGCGTGAAATATGTGCAATGGTCACAAAAGGAACATTGACAGAAGGGGAGTCTCTGCTGGCAAATCCAGATCCATCATATCTATTTTCTGTGG
                                          ctttacttt  CT-rich tract
                                           tttacttt  TA-rich tract