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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataacttaatccctgaaaaagctattgtttcctattatttgttcttttctaataagcattgatgtgtaagtgtaatctacactgttgtctttgtatgttgatttgtagGGCCTGCCCTGGTGACCACAAAGGATGCTGGAGATGCAATTACATTATTGCAATCTCTTGCTGGCTCTACTTTTGACAGCAGTCAACTTGTGTTGACAGC

Basic information

species Oryza sativa
transcript LOC_Os03g17540.3
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g17540.1 (Oryza sativa), 3'ss of exon 11
lower sequence: GRMZM2G095868_T02 (Zea mays), 3'ss of exon 10
---------------gtataacttaatccctgaaaaagctattgtttcctattatttgttcttttctaataagcattgatgtgtaagtgtaatctacactgttgtctttgtatgttgatttgtagGGCCTGCCCTGGTGACCACAAAGGATGCTGGAGATGCAATTACATTATTGCAATCTCTTGCTGGCTCTACTTTTGACAGCAGTCAACTTGTGTTGACAGC
                  || | |  |   | | |     |   | |  | |||||||||||||| |       ||  || |  | ||| |||| ||| |||||||||  ||  || ||||| ||||||||| || ||||||||||| ||||| ||||||||||||||| || |||||||||||||||| ||||||||||||||||| || ||||| ||||||||
gtattagttatcccttcttagcctgtttattaacatctggaaaatgtttttttatttgttcttttttt-----tatctattttgatgtgcaatcaacattgttgtcttcatacattaatttgcagGGCCTGCACTTGTGACCACAAAAGATGCCGGAGATGCAATTACACTACTGCAATCTCTTGCTGGGTCTACTTTTGACAGCAGCCAGCTTGTATTGACAGC

upper sequence: LOC_Os03g17540.1 (Oryza sativa), 3'ss of exon 11
lower sequence: GRMZM2G154883_T02 (Zea mays), 3'ss of exon 10
----------------------gtataacttaatccctgaaaaa-gctattgtttcctattatttgttcttttctaataagcattgatgtgtaagtgtaatctacactgttgtctttgtatgttgatttgtagGGCCTGCCCTGGTGACCACAAAGGATGCTGGAGATGCAATTACATTATTGCAATCTCTTGCTGGCTCTACTTTTGACAGCAGTCAACTTGTGTTGACAGC
                       | |   ||||   ||| |||| | ||  ||||  |  ||||||||||||| |  || | |||    |  | ||| ||   |||||||||||||  ||  || ||||| ||||||||| || ||||||||||| ||||| ||||||||||||||| || |||| ||||||||||| ||||| ||||||||||| || ||||| ||||||||
gtattggttattccttcgtagtctgtttattaacatctggaaaatgttaaagtttttt--tatttgttctttttttttacgaatt----ttgatgtgcaactaacactgttgtcttcatacattaatttgcagGGCCTGCACTAGTGACCACAAAAGATGCCGGAGATGCAATTACACTACTGCAGTCTCTTGCTGGATCTACATTTGACAGCAGCCAGCTTGTATTGACAGC

upper sequence: LOC_Os03g17540.1 (Oryza sativa), 3'ss of exon 11
lower sequence: GLYMA10G05490.1 (Glycine max), 3'ss of exon 11
--------------------gtataacttaatc-cctgaaaaagctattgtttcctattatttgttcttttctaataagcattgatgtgtaagtgtaatctacactgttgtctttgtatgttgatttgtagGGCCTGCCCTGGTGACCACAAAGGATGCTGGAGATGCAATTACATTATTGCAATCTCTTGCTGGCTCTACTTTTGACAGCAGTCAACTTGTGTTGACAGC
                    || |   | | |   ||||  || |||   | |   | || |        |  ||| |   || || | |   |  |    ||||       ||| ||| | |  || |||| |||||  | || || ||||| |||||||| |||||||||||||| || ||||| |||| ||| || || ||||| ||||| || ||||| || || ||
gtattgaattttgatttcctgtgtttatgagtgatctgagcaaactagcatctgtaagtagtaaactaaattaaattattgtttatatcttccttaatgtaacacaa-----tttttatctcgtattctagGTCCTGCATTAGTTACAACAAAAGATGCTGGTGATGCAATTACATTGTTTCAATCACTTGTTGGTTCAACATTTGATAGCAGCCAGCTTGTCTTTACTGC

upper sequence: LOC_Os03g17540.1 (Oryza sativa), 3'ss of exon 11
lower sequence: Vv08s0040g03050.t01 (Vitis vinifera), 3'ss of exon 10
------gtataacttaatccctgaaaaagctattgtttcctattatttgttcttttctaataagcattgatgtgtaagtgtaatctacactgttgtctt-tgtatgttgatttgtagGGCCTGCCCTGGTGACCACAAAGGATGCTGGAGATGCAATTACATTATTGCAATCTCTTGCTGGCTCTACTTTTGACAGCAGTCAACTTGTGTTGACAGC
        | || | ||   | |     |  | | |||   |  ||   |     | |||      ||  |  |    |   | | |     || | |    |    |   ||||||| | ||| || || || || |||||||||||||||||||| || || ||||||||| |||| ||||| || ||||| || ||||| ||||| ||||| ||
gtacacagaaaaataaacttcagtgtctga-actctttggcacaataactcacaatttaactc-tgtttttaggctgttcagagccatgaaattctatcacattcaatttcttgtagGTCATGCACTAGTTACAACGAAGGATGCTGGAGATGCAATCACTTTGTTGCAATCTTTTGCCGGCTCAACGTTTGATAGTAGTCAGCTTGTTTTGACTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagcattgatgtgtaagtgtaatctacactgttgtctttgtatgttgatttgtagGGCCTGCCCTGGTGACCACAAAGGATGCTGGAGATGCAATTACATTATTGCAATCTCTTGCTGGCTCTACTTTTGACAGCAGTCAACTTGTGTTGACAGC
                                          tgttgat  putative branch site (score: 4)
                   taatcta  TA-rich tract