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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGATGAGCGAGCAAACCGAAATGTTGATATCCTCAGGGATTTCTGTATGGAGCAGAACATCAAGTACTTCTATGACATCAAGGACCTGAGCAATTTCAAAgtatgccgatccattttcattatcttttctccaattgatagcttgtttgttttgtatcaaacctgttttcatgttcattttgaagaaattttttaaataaactgcaatttgtgttgtttgcag

Basic information

species Oryza sativa
transcript LOC_Os02g03260.2
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g03260.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G370852_T03 (Zea mays), 5'ss of exon 4
CGATGAGCGAGCAAACCGAAATGTTGATATCCTCAGGGATTTCTGTATGGAGCAGAACATCAAGTACTTCTATGACATCAAGGACCTGAGCAATTTCAAAgtatgccgatccattttcattatcttttctccaattgatagcttgtttgttttgtatc---aaacctgttttcatgttcattttgaagaaattttttaa--ataaactgcaatttgtgtt-gtttgcag
||| ||||| || ||||| || || |||||||||||||| |||||| |||||||||||||||||||||||||||| ||||||||||| ||| ||||||  ||||||| |  | ||| | |     ||| |  | |||||| ||||  |  | ||  ||     |||    || | ||||  | |          ||  |  |||   || | ||  | || ||||||||
CGACGAGCGCGCCAACCGCAACGTCGATATCCTCAGGGACTTCTGTCTGGAGCAGAACATCAAGTACTTCTATGATATCAAGGACCTCAGCGATTTCAGGgtatgcccactcctttgcttctcggtttatttagttgatatcttggcttctctgcctcctagtaccaaaatttaggttccctgtattttcccccttccacaatagtttgaatttcatatttgtttgcag

upper sequence: LOC_Os02g03260.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G010044_T02 (Zea mays), 5'ss of exon 3
CGATGAGCGAGCAAACCGAAATGTTGATATCCTCAGGGATTTCTGTATGGAGCAGAACATCAAGTACTTCTATGACATCAAGGACCTGAGCAATTTCAAAgtatgccg-atccattt----------tcattatcttttctccaattgatagcttgtttgttttgtatcaa----acctgttttcatgttcat--tttgaagaaatttttt----aaataaactgcaatttgt-gttgtttgcag
||| |  || || || || || || || ||||||||||| ||||||  ||||||||||||||||||||||||||||||||||||||| ||| ||||||  ||| ||   | || |||          ||||| | |||  | ||  |  | |||| | ||  | ||||||     ||| |  || | |||| |   ||| ||        |     |  |   | || || |  ||||| |||||
CGACGGCCGTGCCAAACGCAACGTCGACATCCTCAGGGACTTCTGTGCGGAGCAGAACATCAAGTACTTCTATGACATCAAGGACCTCAGCGATTTCAGGgtacgctacaaccgtttgcttcttgcttcattttttttagttcatgtcttggcttctctgcctggtatcagtaataccagaatttaggttcctagcttgtagcttcccccttccggagcattttacatttcggagttgtctgcag

upper sequence: LOC_Os02g03260.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G133988_T01 (Zea mays), 5'ss of exon 1
CGATGAGCGAGCAAACCGAAATGTTGATATCCTCAGGGATTTCTGTATGGAGCAGAACATCAAGTACTTCTATGACATCAAGGACCTGAG----CAATTTCAAAgtatgccgatccattt-tcattatcttttctccaattgatagcttgtt---tgttttgtatcaaacctgttttca--tgttcattttgaagaaattttttaaataaactgcaatttgtgttgtttgcag
                                        ||||||  |||||||||| |||||||||||||||||||||||||||| ||    | |||||  ||  | |  |  | | |  || |  |       | |  | || ||||     | |||    |  | |  |  |     ||  ||| |||       ||  | ||    || |||||| ||||        
---------------------------------------CTTCTGTGCGGAGCAGAACGTCAAGTACTTCTATGACATCAAGGACCTCAGGCAGCGATTTCGGAGC-TACAAAGGCGTCTGCCACTGCCGACCAGGCGA--Ggtaccttgccgagtctttcagctacagctcgcctgtgattggacatattgggtggcgttaattaacctgctccaatttctgttag------

upper sequence: LOC_Os02g03260.1 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv05s0049g01980.t01 (Vitis vinifera), 5'ss of exon 4
CGATGAGCGAGCAAACCGAAATGTTGATATCCTCAGGGATTTCTGTATGGAGCAGAACATCAAGTACTTCTATGACATCAAGGACCTGAGCAATTTCAAAgtatgccgatcca--ttttcattatcttttctccaattgatagcttgt-ttgttttgtatcaaacctgttttcatgttcatt---ttgaag--aaattttttaaataaac-tgcaatttgtgttgtttgcag
 ||||| || ||||| || |||||||||||||| ||||| || || |  ||||| || |||||||||||||||||||| || || ||  | |||||||  |||||||  ||     ||||||  | |  | |||||    |    | | ||| |     |  | | | | ||| |||| |||    ||||   ||| |||    || | | ||||                 
GGATGAACGGGCAAATCGTAATGTTGATATCCTGAGGGAATTTTGCACAGAGCAAAATATCAAGTACTTCTATGACATAAAAGATCTTGGTAATTTCAGGgtatgcctctctggtctttcatgttttagtttccaaccactgaactatattgctgaaggtgtatcatctattcttgtttattgcactgaatgtaaactttacgtatgagcatgcag----------------

upper sequence: LOC_Os02g03260.1 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv08s0056g01640.t01 (Vitis vinifera), 5'ss of exon 4
CGATGAGCGAGCAAACCGAAATGTTGATATCCTCAGGGATTTCTGTATGGAGCAGAACATCAAGTACTTCTATGACATCAAGGACCTGAGCAATTTCAAAgtatgccgatccattttcattatcttttctccaattgatagcttgtttgttttgtatcaaacctgttttcatgttcattttgaagaaattttttaaataaactgcaa--tttg--tgttgtttgcag
 |||||||| ||||| || |||||||||||  | |||||||| || | |||||| || ||||||||||||||||| || || || ||  | |||||||| |||||  |  || ||    |  |   |  |  | ||   | |   |    | | |  | ||   ||| |||| |    ||        ||| | | ||  | || ||  ||||  | |||  |||||
TGATGAGCGGGCAAATCGTAATGTTGATATATTGAGGGATTTTTGCACGGAGCAAAATATCAAGTACTTCTATGATATAAAAGATCTTGGTAATTTCAAGgtatgatg--cctttcaggtgtttcatgttttagtttccaaccgctaaactatcttgctaaaaggttatcatctgtcctt-------gtttatcacatggaatgtaaagtttgcttattgactgcag

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|29628818|gb|CB633829.1|CB633829
EST:     AGCAGAACATCAAGTACTTCTATGACATCAAGGACCTGAGCAATTTCAAA                         GCAAATCCAGACTACAAGGGTGTTTGCCACGTTGCTCTTGCTCAAGAGGGT
genomic: AGCAGAACATCAAGTACTTCTATGACATCAAGGACCTGAGCAATTTCAAAgtatgccgat ... ttgtttgcagGCAAATCCAGACTACAAGGGTGTTTGCCACGTTGCTCTTGCTCAAGAGGGT