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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atataggttctaatgtcatgtcaagatgtgtgtaaggctaagcctttcttgtgatgcaaaattggagactaatctaatttgttttctaacatgtcttcagAATAGTGGATCCAGAATGAGGATTGCTGGGAGATTCAAGCCTTGCATTCACATGGGTTGTTTTGATCTTGAAACTTTCGTGGAATTGAATCAACGGTCCC

Basic information

species Oryza sativa
transcript LOC_Os05g03430.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g03430.3 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G155123_T02 (Zea mays), 3'ss of exon 12
-atataggttctaatgtcatgtcaagatgt-gtgtaaggctaagcctttcttgtg--atgcaaaattggagactaatctaatttgttttctaacatgtcttcagAATAGTGGATCCAGAATGAGGATTGCTGGGAGATTCAAGCCTTGCATTCACATGGGTTGTTTTGATCTTGAAACTTTCGTGGAATTGAATCAACGGTCCC
   |||  || |   ||    |  || |||  |||   |||||||   ||  |||  ||    | |||||     ||||||  | |||| ||     | |||||||||| ||||||||||||||||||||||| || |||||||||||  |||||||||| |||||||||||||||||||| ||||||||||||||||| || |
agcatatcttttctggttggctatagctgtcatgtttagctaagctgctccggtgcaatttgcatttggaattgtatctaacatattttttat----ttttcagAATAGCGGATCCAGAATGAGGATTGCTGGAAGGTTCAAGCCTTGTGTTCACATGGGCTGTTTTGATCTTGAAACTTTTGTGGAATTGAATCAACGCTCAC

upper sequence: LOC_Os05g03430.3 (Oryza sativa), 3'ss of exon 8
lower sequence: GLYMA12G29270.1 (Glycine max), 3'ss of exon 9
atataggttctaatgtcatgtcaagatgtgtgtaaggctaagcctttcttgtgatgcaaaattggagactaatctaatttgttttctaac-atgtcttcagAATAGTGGATCCAGAATGAGGATTGCTGGGAGATTCAAGCCTTGCATTCACATGGGTTGTTTTGATCTTGAAACTTTCGTGGAATTGAATCAACGGTCCC
 || ||| | | ||||  ||    |||   | ||   || |     | || | |  ||      |||   | |  | ||| |   ||    |  | |  |||  ||||| || ||||||| |||||| || |||||||| |||||  ||||||| ||||||||||||||||||  ||| |||||| ||||| |||||||  
gta-aggctttcatgtattg----gattattttagtactcatggagttttataaatcagttcctgaggtca-taaattttatacgcttgtgaaatttatagATGAGTGGTTCAAGAATGAAGATTGCAGGAAGATTCAAACCTTGTGTTCACATTGGTTGTTTTGATCTTGAAGTTTTTGTGGAAATGAATGAACGGTCAA

upper sequence: LOC_Os05g03430.3 (Oryza sativa), 3'ss of exon 8
lower sequence: GLYMA12G07590.1 (Glycine max), 3'ss of exon 13
atataggttctaatgtcatgtcaagatgtgtgtaa-ggctaagcctttcttgtgatgcaaaattggagactaatc--taatttgttttctaacatgtcttcagAATAGTGGATCCAGAATGAGGATTGCTGGGAGATTCAAGCCTTGCATTCACATGGGTTGTTTTGATCTTGAAACTTTCGTGGAATTGAATCAACGGTCCC
                   ||   | | |    ||  | | |    || | |  || ||  |      |||||||  |  ||| ||||     |    || |||  ||||| || ||||||| ||||||||| ||||| || || || |||||||||||||| ||||||||||||   || |||||| |||| ||||| ||  
-------------------gtatggctttcatcaatagatgaattattttagcaattcatgaagtcctactaatcagttttttatttttggtgaaaattttagATGAGTGGTTCAAGAATGAAGATTGCTGGAAGATTTAAACCCTGTATTCACATGGGTTGCTTTGATCTTGAAGTGTTTGTGGAAATGAACCAACGATCAA

upper sequence: LOC_Os05g03430.3 (Oryza sativa), 3'ss of exon 8
lower sequence: GLYMA13G40320.1 (Glycine max), 3'ss of exon 9
atataggttctaatgtcatgtcaagatgtgtgtaaggctaagcctttcttgtgatgcaaaattggagactaatctaatttgttttctaac-atgtcttcagAATAGTGGATCCAGAATGAGGATTGCTGGGAGATTCAAGCCTTGCATTCACATGGGTTGTTTTGATCTTGAAACTTTCGTGGAATTGAATCAACGGTCCC
             |      |  |||    | ||   || |     | || | |  ||      ||    |    | ||| |   ||    |  | |  |||  ||||| || ||||||| |||||| || |||||||| |||||  ||||||||||||||||||||||||||  ||| |||||| ||||| |||||||  
------------gtaaggctttcagacacttttagtactcatggagttttataaatcagttcctgaagtcataaaattttatacacttgtgaaatttatagATGAGTGGTTCAAGAATGAAGATTGCAGGAAGATTCAAACCTTGTGTTCACATGGGTTGTTTTGATCTTGAAGTTTTTGTGGAAATGAATGAACGGTCAA

upper sequence: LOC_Os05g03430.3 (Oryza sativa), 3'ss of exon 8
lower sequence: GLYMA11G15880.1 (Glycine max), 3'ss of exon 13
atataggttctaatgtcatgtcaagatgtgtgtaa-ggctaagcctttcttgtgatgcaaaattggagactaatctaatttgttttctaacatgt---cttcagAATAGTGGATCCAGAATGAGGATTGCTGGGAGATTCAAGCCTTGCATTCACATGGGTTGTTTTGATCTTGAAACTTTCGTGGAATTGAATCAACGGTCCC
                   ||   | | |    ||  | | |    || | |  || ||  |       ||||||   ||| |||| |    ||     || |||  ||||| || ||||||| ||||||||| ||||| || || || |||||||||||||| ||||||||||||  ||| |||||| ||||||| || ||  
-------------------gtatggctttcatcaatagatgaattattttagcaattcatgaagtcctcctaatcagtttttttttttttggtgaaaattttagATGAGTGGTTCAAGAATGAAGATTGCTGGAAGATTTAAACCCTGTATTCACATGGGTTGCTTTGATCTTGAAGTTTTTGTGGAAATGAATCAGCGATCAA

upper sequence: LOC_Os05g03430.3 (Oryza sativa), 3'ss of exon 8
lower sequence: Vv06s0004g03180.t01 (Vitis vinifera), 3'ss of exon 12
atataggttctaatgtc-atgtcaagatgtgtgtaaggctaagcctttcttgtgatgcaa--aattggagactaatctaatttgttttctaacatgt---cttcagAATAGTGGATCCAGAATGAGGATTGCTGGGAGATTCAAGCCTTGCATTCACATGGGTTGTTTTGATCTTGAAACTTTCGTGGAATTGAATCAACGGTCCC
     | || | |||   |   |   ||   | |      ||  ||||  ||| |    |  | ||   || | || || ||| |  ||  ||||||    | ||||  ||||| || ||||||| | ||||||| |||||||| |||||   ||||||||| |||||||||||||||| ||| |||||| |||| ||||| ||  
-----gtttttgatgcagaaaacccaataacttttgttgcaatgcttttatgtaacctgattacttttggaatcatata-tttttactcatacatgtaaattacagATGAGTGGTTCAAGAATGAAGGTTGCTGGAAGATTCAAACCTTGTGCTCACATGGGCTGTTTTGATCTTGAAATTTTTGTGGAAATGAACCAACGTTCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcttgtgatgcaaaattggagactaatctaatttgttttctaacatgtcttcagAATAGTGGATCCAGAATGAGGATTGCTGGGAGATTCAAGCCTTGCATTCACATGGGTTGTTTTGATCTTGAAACTTTCGTGGAATTGAATCAACGGTCCC
                                      ttctaac  putative branch site (score: 1)
                                              tgtcttc  CT-rich tract
                        taatctaatttgtttt  TA-rich tract