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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttcaaacgaaaacttctactactatatattttaatttctagcaatttgtttctcaaccagttcctcaccttccctacttttatattcatacaattatcttcatggtctccagtgtttcaccactggagtaaaataaagcttatcacgcatttagaatgcttctctaagttctcccgattatagGTTATGCATCTTGATGCTGAAAAGGAGATGATGTCCCAGTGCGTGGCTCTTCTTGGGAAGTTTATTGCAGTTCGGGAACCAAATATTAGGTATCTTGGTC

Basic information

species Oryza sativa
transcript LOC_Os03g02150.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g02150.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G137236_T01 (Zea mays), 3'ss of exon 9
gtgagttcaaacgaaaacttctactactatatattttaatttctagcaatttgtttctcaaccagttcctcaccttccctacttttatattcatacaattatcttcatggtctccagtgtttcaccactggagtaaaataaagcttatcacgcatttagaatgcttctctaagttctcccgattatagGTTATGCATCTTGATGCTGAAAAGGAGATGATGTCCCAGTGCGTGGCTCTTCTTGGGAAGTTTATTGCAGTTCGGGAACCAAATATTAGGTATCTTGGTC
                                                                                             |    || |  | ||| |   ||   || ||    |||  ||   |     | || | |  ||     |||   | |||    ||     ||||||| |||||||| ||||||||||||||||||||||| ||||| ||||||||||||||||||||||||||||| ||||| ||||| ||| |||| |||||||
--------------------------------------------------------------------------------------------gtgagtttgtacttatgtttcgcaaaattacagt-ttggtatattgtctttttaattaagtctt-----tgcacgtataatgcttca----tatagGTCATGCATCTGGATGCTGAAAAGGAGATGATGTCACAGTGTGTGGCTCTTCTTGGGAAGTTTATTGCAGTCCGGGAGCCAAACATTCGGTACCTTGGTC

upper sequence: LOC_Os03g02150.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G700148_T01 (Zea mays), 3'ss of exon 8
gtgagttcaaacgaaaacttctactactatatattttaatttctagcaatttgtttctcaaccagttcctcaccttccctacttttatattcatacaattat-cttcatggtctc-cagtgtttcaccactggagtaaaataaagcttatcacgcatttagaatgcttctctaagttctcccgattatagGTTATGCATCTTGATGCTGAAAAGGAGATGATGTCCCAGTGCGTGGCTCTTCTTGGGAAGTTTATTGCAGTTCGGGAACCAAATATTAGGTATCTTGGTC
                         | | | ||||  | |||  ||| |||  |  | || || | |||   | | |  | | ||| | | ||||   |||| ||||      || |||| |   | | |||      ||| |||  | |   |||| || ||| || |                ||||||| |||||||| |||||||| |||||||||||||| ||||| ||||||||||||||||||||||||||||| ||||| ||||| ||| |||| || ||||
----------------------gtgagtttgtattg-actttaaagcgattaatcccccaccctggtccgatcttgcattgccttt-tctgcataagtttatgcttcgcaaaatcacagtttggtatc-ctgtctattaattaagtctgtt-tgcatgtataatactcca---------------tatagGTCATGCATCTGGATGCTGAGAAGGAGATGATGTCACAGTGTGTGGCTCTTCTTGGGAAGTTTATTGCAGTCCGGGAGCCAAACATTCGGTACCTCGGTC

upper sequence: LOC_Os03g02150.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GLYMA12G30520.1 (Glycine max), 3'ss of exon 8
gtgagttcaaacgaaaacttctactactatatattttaatttctagcaatttgtttctcaaccagttcctcaccttccctacttttatattcatacaattatcttcatggtctccagtgtttcaccactggagtaaaataaagcttatcacgcatttagaatgcttctctaagttctcccgattatagGTTATGCATCTTGATGCTGAAAAGGAGATGATGTCCCAGTGCGTGGCTCTTCTTGGGAAGTTTATTGCAGTTCGGGAACCAAATATTAGGTATCTTGGTC
                                                               | |  ||| |   |||| ||   | ||| | | |        || ||       | |||   |||   | | | ||   | |  | |  |  |       ||  ||| | | ||    |||  |||| |||||||||||||||||||| ||||||||||| ||||| |||||||||||||| || |||||||| || || |||||||| ||| | ||||||||  
------------------------------------------------------------gttaatctctccctcccccttctccca-atttacata--------caggg-----gattttttctcac---aatgagatgttg-tagttatactct-------ctattctgattgctat--att-cagGTGATGCATCTTGATGCTGAAAAAGAGATGATGTCTCAGTGTGTGGCTCTTCTTGGAAAATTTATTGCTGTCCGTGAACCAAACATTCGATATCTTGGCT

upper sequence: LOC_Os03g02150.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GLYMA17G05410.1 (Glycine max), 3'ss of exon 8
gtgagttcaaacgaaaacttctactactatatattttaatttctagcaatttgtttctcaaccagttcctcaccttccctacttttatattcatacaattatcttcatggtctccagtgtttcaccactggagtaaaataaagcttatcacgcatttagaatgcttctctaagttctcccgattatagGTTATGCATCTTGATGCTGAAAAGGAGATGATGTCCCAGTGCGTGGCTCTTCTTGGGAAGTTTATTGCAGTTCGGGAACCAAATATTAGGTATCTTGGTC
                                                                  | ||| || ||||  ||| |     ||   | |||  | || ||  |    | ||||  |||   | | | ||  |||   | |  |  |       ||  ||| | | ||    |||  |||| |||||||||||||||||||| ||||||||||| || || |||||||||||||| || |||||||| || || |||||||| ||| | ||||||||  
-----------------------------------------------------------------attctctccctccccccttct---ccca---atttacatacaagggatt---tttttcctcac---aatcagatgtagca-gttatactct-------ctattctgattgctat--att-cagGTGATGCATCTTGATGCTGAAAAAGAGATGATGTCTCAATGTGTGGCTCTTCTTGGAAAATTTATTGCTGTCCGTGAACCAAACATTCGATATCTTGGCT

upper sequence: LOC_Os03g02150.1 (Oryza sativa), 3'ss of exon 8
lower sequence: AT5G22770.1 (Arabidopsis thaliana), 3'ss of exon 8
gtgagttcaaacgaaaacttctactactatatattttaatttctagcaatttgtttctcaaccagttcctcaccttccctacttttatattcatacaattatcttcatggtctccagtgtttcaccactggagtaaaataaagcttatcacgcatttagaatgcttctctaagttctcccgattatagGTTATGCATCTTGATGCTGAAAAGGAGATGATGTCCCAGTGCGTGGCTCTTCTTGGGAAGTTTATTGCAGTTCGGGAACCAAATATTAGGTATCTTGGTC
                                                                       |  |     |  |||||      | | ||  ||| || ||  | |    |||    ||||  ||   |  | | |   |    ||||   || ||                 ||||||| ||||||||||||||||| ||||| |||||||| ||||| || ||||||||||| ||||||||| | || || || || || || || ||||| ||  
----------------------------------------------------------------------tatttctaagaggtttat-catggatagttgacttaattgttcctaacagttc---tctggcttagtgtgcaacctcctaactttttaatgtgtttt--------------gatatagGTCATGCATCTTGATGCTGAGAAGGAAATGATGTCACAGTGTGTTGCTCTTCTTGGCAAGTTTATTTCTGTCCGTGAGCCCAACATCAGATATCTAGGCT

upper sequence: LOC_Os03g02150.1 (Oryza sativa), 3'ss of exon 8
lower sequence: AT5G22780.1 (Arabidopsis thaliana), 3'ss of exon 8
gtgagttcaaacgaaaacttctactactatatattttaatttctagcaatttgtttctcaaccagttcctcaccttccctacttttatattcatacaa-ttatcttcatggtctccag--tgtttcac-cactggagtaaaataa--agcttatcacgcatttagaatgcttctctaagttctcccgattatagGTTATGCATCTTGATGCTGAAAAGGAGATGATGTCCCAGTGCGTGGCTCTTCTTGGGAAGTTTATTGCAGTTCGGGAACCAAATATTAGGTATCTTGGTC
                                                                                            | | |  || |||||  | |    ||  || |   | ||||  |||||| |     |||||    |||       |   |   |||  | |   ||| |||||| ||||||||||||||||| ||||| |||||||| ||||| || ||||||||||| ||||||||| | || || || || || || || ||||| ||  
-------------------------------------------------------------------------------------------aagagagcttttcttcgcgatgattagattgatgagcacactctagtaaactttctggcttagtgtgcaacccc--taacttgttaatgtgttttgat-atagGTCATGCATCTTGATGCTGAGAAGGAAATGATGTCACAGTGTGTTGCTCTTCTTGGCAAGTTTATTTCTGTCCGTGAGCCCAACATCAGATATCTAGGCT

upper sequence: LOC_Os03g02150.1 (Oryza sativa), 3'ss of exon 8
lower sequence: Vv06s0061g01170.t01 (Vitis vinifera), 3'ss of exon 8
gtgagttcaaacgaaaacttctactactatatattttaatttctagcaatttgtttctcaaccagttcctcaccttccctacttttatattcatacaattatcttcatggtctccagtgtttcaccactggagtaaaataaagcttatcacgcatttagaatgcttctctaagttctcccgattatagGTTATGCATCTTGATGCTGAAAAGGAGATGATGTCCCAGTGCGTGGCTCTTCTTGGGAAGTTTATTGCAGTTCGGGAACCAAATATTAGGTATCTTGGTC
                                                                                  ||   | ||| |   |||    |   ||| |    |  |         ||| |  |   ||||| | | |   ||     |  ||  | | ||  || |   | |||| |||||||| ||||||||||| || |||||||| || || || ||  | |||||||| |||||||| || || || ||||||||  | ||||||||| 
---------------------------------------------------------------------------------gttgggttttcctcttatttcaatgtgggtttaagatactggtttttatgagaattaaggagctt-ttatgtggtt-----gtgtccttcaattaccctggc-acagGTCATGCATCTGGATGCTGAAAAAGAAATGATGTCTCAATGTGTTGCCTTGCTTGGGAAATTTATTGCTGTACGAGAGCCAAATATACGATATCTTGGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaaataaagcttatcacgcatttagaatgcttctctaagttctcccgattatagGTTATGCATCTTGATGCTGAAAAGGAGATGATGTCCCAGTGCGTGGCTCTTCTTGGGAAGTTTATTGCAGTTCGGGAACCAAATATTAGGTATCTTGGTC
                                        ttctccc  CT-rich tract
                    atttagaat  TA-rich tract