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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtttgcagtaaactttcagaattttactgaggtcatgttggcagtatttgcactaaaatgatcacttgattcatacagGGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATACGATGACATTGAAATTGTGATCCACCCACAATCTATCATACACTCTATGATTGAAA

Basic information

species Oryza sativa
transcript LOC_Os01g01710.2
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g01710.2 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G036290_T01 (Zea mays), 3'ss of exon 8
gtgt-ttgcagta--aactttcagaattttactgaggtcatgttggcagtatttg-cactaaaatgatcacttgattcatacagGGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATACGATGACATTGAAATTGTGATCCACCCACAATCTATCATACACTCTATGATTGAAA
|||| ||  ||    | ||||   || | |  | |   | | ||     | ||   ||||||| |||  ||||| |   |  ||||||||||||||||||| |||||||||||||||||||||||||| ||||||||||| |||||||| ||||||||||||||||||||||||||| ||||||
gtgtcttagagctccagcttttttaaatgtgtttaatccttatttattatgttaaacactaaagtgacaacttggtat-tgtagGGTTTAGAAGTTATTGAGGCACATTATTTATTTGGTGCTGAATATGATGACATTGAGATTGTGATTCACCCACAATCTATCATACACTCTATGGTTGAAA

upper sequence: LOC_Os01g01710.2 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G056975_T02 (Zea mays), 3'ss of exon 8
--------gtgtttgcagtaaactttcagaattttactgaggtcatgttggcagtatttgcactaaaatgatcacttgattcatacagGGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATACGATGACATTGAAATTGTGATCCACCCACAATCTATCATACACTCTATGATTGAAA
        | | |     |    |   | ||   |  | |   ||| ||     | |   ||||||| |||  ||||| | | |  |||||||||||||||||||||||||||||||||||||||||||||| ||||||||||| |||||||| |||||||| |||||||||||||||||| ||||||
gtgtcatagagctccatcttttttgaaaaaaaaatctttaatccatatttattat-taaacactaaattgacgacttggt-cttgtagGGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATATGATGACATTGAGATTGTGATTCACCCACAGTCTATCATACACTCTATGGTTGAAA

upper sequence: LOC_Os01g01710.2 (Oryza sativa), 3'ss of exon 8
lower sequence: GLYMA17G09740.1 (Glycine max), 3'ss of exon 8
------------------------gtgtttgcagtaaac-----tttcagaattttactgaggtcatgttggcagtattt----gcactaaaatgatcacttgattcat----acagGGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATACGATGACATTGAAATTGTGATCCACCCACAATCTATCATACACTCTATGATTGAAA
                         | || |  | |||      ||| | || | |  | |  | |||| |   | ||||    ||  |||  | |     | || | |    ||||||| ||||||| |||||||||||||| || ||||| ||||| || ||| | ||||| ||||| || || |||||||| |||||||| || ||||||||||
gtttgtttctttttttatgtcaacatattggacgcaaatagcctttttataaatctgtttaa-ttatgtggtatgaatttcctagctataaggtaaatttcttatacttcttcacagGGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTATGATCATATTGAGATTGTCATTCATCCACAATCAATCATACATTCAATGATTGAAA

upper sequence: LOC_Os01g01710.2 (Oryza sativa), 3'ss of exon 8
lower sequence: GLYMA05G02190.1 (Glycine max), 3'ss of exon 8
------------------------gtgtttgcagtaaac--tttcagaattttactgaggtcatgttggcagtattt----gcactaaaatga---tcacttgattcat-acagGGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATACGATGACATTGAAATTGTGATCCACCCACAATCTATCATACACTCTATGATTGAAA
                         ||  || |   | |  ||| | || | |  | |  | |||| |   | ||||    ||  |||  | |   ||   || ||| | ||||||| ||||||| |||||||||||||| || ||||| ||||| |||||| | ||||| ||||| || || |||||||| |||||||| || ||||||||||
gtttgcttctttttttatgtcatattgaatgaaaagagccattttataaatctgtttaa-ttatgtggtatgaatttcctagctataaggtaaatttcttctgcttcttcacagGGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCATATTGAGATTGTCATTCATCCACAATCAATCATACATTCAATGATTGAAA

upper sequence: LOC_Os01g01710.2 (Oryza sativa), 3'ss of exon 8
lower sequence: Vv17s0000g08390.t01 (Vitis vinifera), 3'ss of exon 8
----------------------------gtgtttgcagtaaactttcagaattttactgaggtcatgttggcagtatttgcactaaaatgatcacttgattcat--acagGGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATACGATGACATTGAAATTGTGATCCACCCACAATCTATCATACACTCTATGATTGAAA
                             || || ||   | |  |  |    | | |    |||   |||    | |||||  |||    |   ||   |  |  ||||||||||||||||||||||||||| ||| | ||||| |||||||| ||||| ||||| ||  | || || ||||||||||||||||| |||||| | ||||
gtttgtcccttttttggtgtctctattcttgattacatgcaccaatatgtgaatgaatctactcactatggtctgagttgcaacaaataccttgttttcctttttgacagGGTTTAGAAGTTATTGAAGCACACTATCTGTTTGGGGCTGAATATGATGATATTGAGATCATAATTCATCCACAATCTATCATACATTCTATGGTCGAAA

upper sequence: LOC_Os01g01710.2 (Oryza sativa), 3'ss of exon 8
lower sequence: PP1S62_157V6.2 (Physcomitrella patens), 3'ss of exon 10
-----------------------------------------------------------------------------------------------------------------gtgtttgcagtaa-actttcagaattttactgaggtcatgttggcagtatt-tgcactaaaatga--tcacttgattcata---cagGGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATACGATGACATTGAAATTGTGATCCACCCACAATCTATCATACACTCTATGATTGAAA
                                                                                                                 |  |     | || | ||   | || ||  |  |  ||||   ||    || |||    ||||||  |||  ||  |       ||||| || ||||| |||||||| || ||| | || |||||||| |||||||||||||| |||||  |||| || ||||| ||||| || || ||| | || |
gtaagctttttctgagttgcgcttgcaaagctggcaacaattcatttcactcgatgttttctcaaattttgtttttgcaaccaagtcctgctggtatctattttatggatgtcgcttcaattgaaatagttggtggatcttctttggagcatgcatgcttccttgtgcttagaaatgacgtcaaatgtgttgcttgtcagGGGTTGGAAGTGATTGAAGCTCACTATCTCTTCGGTGCTGATTACGATGACATTGATATTGTTGTCCATCCCCAATCAATCATTCATTCCATGGTGGAGA

upper sequence: LOC_Os01g01710.2 (Oryza sativa), 3'ss of exon 8
lower sequence: EFJ07179 (Selaginella moellendorffii), 3'ss of exon 9
gtgtttgcagtaaactttcagaattttactgaggtcatgttggcagtatttgcactaaaatgatcacttgattcatacagGGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATACGATGACATTGAAATTGTGATCCACCCACAATCTATCATACACTCTATGATTGAAA
                          ||   |   ||| ||   | | | |   || || | | ||  |  | |   |||||  | || || |||||||| || ||||| ||||| ||||| || ||||||||||| ||||| ||||| || ||||| || |||||||| ||||| || |
-------------------------gtaa-aaaaacatttttatact-tgtctgctgaactaa-catcttctgctggcagGGACTCGAGGTCATTGAAGCTCACTATTTGTTTGGAGCTGACTATGATGACATTGACATTGTTATCCATCCCCAATCCATTATACACTCCATGATCGAGA

upper sequence: LOC_Os01g01710.2 (Oryza sativa), 3'ss of exon 8
lower sequence: EFJ09183 (Selaginella moellendorffii), 3'ss of exon 9
gtgtttgcagtaaactttcagaattttactgaggtcatgttggcagtatttgcactaaaatgatcacttgattcatacagGGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATACGATGACATTGAAATTGTGATCCACCCACAATCTATCATACACTCTATGATTGAAA
                          ||   |   ||| ||   | | | |   || || | | ||  |  | |   |||||  | || || |||||||| || ||||| ||||| ||||| || ||||||||||| ||||| ||||| || ||||| || |||||||| ||||| || |
-------------------------gtaa-aaaaacatttttatact-tgtctgctgaactaa-catcttctgctggcagGGACTCGAGGTCATTGAAGCTCACTATTTGTTTGGAGCTGACTATGATGACATTGACATTGTTATCCATCCCCAATCGATTATACACTCCATGATCGAGA

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|58694512|gb|CK083199.1|CK083199
EST:     GGAATATGGGGAAGAAGATTACTGTAGATTCTGCTACATTATTCAACAAG                         GGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATACGATGAC
genomic: GGAATATGGGGAAGAAGATTACTGTAGATTCTGCTACATTATTCAACAAGgtgtttgcag ... attcatacagGGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATACGATGAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttactgaggtcatgttggcagtatttgcactaaaatgatcacttgattcatacagGGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATACGATGACATTGAAATTGTGATCCACCCACAATCTATCATACACTCTATGATTGAAA
                              taaaatgat  TA-rich tract