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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTATGATATATATTTGCTTCCTCCAGGCGAAGATCCAGAATCATGCCAATCTTATTTGAGAATGAGGAATAGGGAAGGGAAATATAATCTGATGTTTGAGgtatgcaatttattgcaatggctacataagtgcatatgtgtgatggatatagttggttgttttgttacaagaattacctctctggcccattattttatat...

Basic information

species Oryza sativa
transcript LOC_Os02g47860.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g47860.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G143804_T01 (Zea mays), 5'ss of exon 3
TTATGATATATATTTGCTTCCTCCAGGCGAAGATCCAGAATCATGCCAATCTTATTTGAGAATGAGGAATAGGGAAGGGAAATATAATCTGATGTTTGAGgtatgcaatttattgcaatggctacataagtgcatatgtgtgatggatatagttggttgttttgttacaagaattacctctctggcccattattttatat----
||||||||||||| | ||||| |  || ||||| |||||| |||| ||||||||  |||||||| ||||||||||| ||||| ||||||| |||||||||||||   || | ||  |     | |     | |  |||         | |   ||  | || |     |  |||    | ||      ||  ||| |||     
TTATGATATATATCTACTTCCACATGGTGAAGACCCAGAAGCATGTCAATCTTACATGAGAATGCGGAATAGGGAAAGGAAAAATAATCTAATGTTTGAGgtat---atctgttttatattttcctatcataccaatggaattccagtttttatgacttttctcccttacaaatggaatttcaattttat-gtttgataaatat

upper sequence: LOC_Os02g47860.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G147430_T02 (Zea mays), 5'ss of exon 6
TTATGATATATATTTGCTTCCTCCAGGCGAAGATCCAGAATCATGCCAATCTTATTTGAGAATGAGGAATAGGGAAGGGAAATATAATCTGATGTTTGAGgtatg-caatttattgcaatggctacataagtgcatatgtgtgatggatatagttggttgttttgttacaagaattacctctctggcccattattttatat-----
||||||||||||| ||||||| || || ||||| |||||| ||||||||||||| ||||||||| ||||||||||||||||||||||||| |||||||||||||  |  |||  | |  |  |||      | |  |||  |    | | ||  || || || |     |  |||    | || |    ||  ||| |||      
TTATGATATATATCTGCTTCCACCTGGTGAAGACCCAGAAGCATGCCAATCTTACTTGAGAATGCGGAATAGGGAAGGGAAATATAATCTAATGTTTGAGgtatatccgttttatacttttcctatcc---taccaatgaattccagtttta--tgttttttctcccttataaatggaatttcagttttat-gtttgatagctaca

upper sequence: LOC_Os02g47860.2 (Oryza sativa), 5'ss of exon 6
lower sequence: AT1G26190.1 (Arabidopsis thaliana), 5'ss of exon 6
TTATGATATATATTTGCTTCCTCCAGGCGAAGATCCAGAATCATGCCAATCTTATTTGAGAATGAGGAATAGGGAAGGGAAATATAATCTGATGTTTGAGgtatgc----aatttattg-caatggctacataagtgcatatgtgtgatg---gatatagttggttgtt-------ttgttacaaga-attacctctctggcccattattttatat-----------------
 |||||||||||| | |||||||| || ||||||||||| || |||||||| |||||||| ||| ||||||  || || || || |  || ||||||||||| ||     | ||||||  | |||    ||| | |     | |   ||    |  | || ||    |        || |   ||||   |   | |||||   || | | |   |                 
CTATGATATATATCTTCTTCCTCCGGGTGAAGATCCAGAGTCGTGCCAATCATATTTGAGGATGCGGAATAAAGATGGAAAGTACAGCCTTATGTTTGAGgtttgttcagagtttattttccatgttctcatcaatatgactattcaatatctggaaaagctgacaatccctctgattctggtaagatgcttagtatctggtgaataactgtggttctggttttgacaaccag

upper sequence: LOC_Os02g47860.2 (Oryza sativa), 5'ss of exon 6
lower sequence: Vv17s0000g04650.t01 (Vitis vinifera), 5'ss of exon 5
TTATGATATATATTTGCTTCCTCCAGGCGAAGATCCAGAATCATGCCAATCTTATTTGAGAATGAGGAATAGGGAAGGGAAATATAATCTGATGTTTGAGgtatgcaatttattgcaatggctacataagtgca----tatgtgtgatggatatagttggttgttttgttacaagaattacctctctggcccattattttatat
||||||||||||| | || || || || |||||||| ||| |||||||||| ||| |||| |||||||| ||||| || ||||| ||||| ||||||||||| ||    || | ||    ||| | ||| || |    ||| |||| | || || ||      | |  | |  |||| ||| |       |||||  |      
TTATGATATATATCTTCTACCGCCTGGTGAAGATCCTGAAGCATGCCAATCATATCTGAGGATGAGGAACAGGGATGGCAAATACAATCTCATGTTTGAGgtttgactgttgtggcttaagcttcttaattggaatgatatttgtgtttgacattgtgacagatgtaataatcagaagtacttagtatcaccattgatag----

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|218492625|gb|FG962240.1|FG962240
EST:     CTTATTTGAGAATGAGGAATAGGGAAGGGAAATATAATCTGATGTTTGAG                         GAGTGGGTGACCGATAATCCTTTTATCATATCACCAAGGATTACGTTTGAA
genomic: CTTATTTGAGAATGAGGAATAGGGAAGGGAAATATAATCTGATGTTTGAGgtatgcaatt ... taatttgaagGAGTGGGTGACCGATAATCCTTTTATCATATCACCAAGGATTACGTTTGAA
EST: gi|428928|gb|D25084.1|D25084
EST:     CTTATTTGAGAATGAGGAATAGGGAAGGGAAATATAATCTGATGTTTGAG                         GAGTGGGTGACCGATAATCCTTTTATCATATCACCAAGGATTACGTTTGAA
genomic: CTTATTTGAGAATGAGGAATAGGGAAGGGAAATATAATCTGATGTTTGAGgtatgcaatt ... taatttgaagGAGTGGGTGACCGATAATCCTTTTATCATATCACCAAGGATTACGTTTGAA