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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTGGAAATTTGGCGAACCAGGAAACAAATATTTTCGGCATGCTACTGGTCAATTGTATGCTATTTCAAAAGATCTAGCAACCTACATATCTATAAACAGgtgagataacacctgttttcatatttacctgtgtgcacatgcacgccttgttctcattgttgcacaaactaatgctgattcctctaatccaattgctag

Basic information

species Oryza sativa
transcript LOC_Os02g06840.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g06840.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G132866_T01 (Zea mays), 5'ss of exon 9
ATTGGAAATTTGGCGAACCAGGAAACAAATATTTTCGGCATGCTACTGGTCAATTGTATGCTATTTCAAAAGATCTAGCAACCTACATATCTATAAACAGgtgagataacacctgttttcatatttacctgtgtgcacatgcacgccttgttctc-attgttgcacaaactaatgctgattcctctaatccaattgctag--
| ||||| || |||||| | || ||||| || || ||||||||||| |||||||| |||||| ||||||| || || || || || ||||||||||||| |||||  | ||   |  |      | |  | | |  | ||  ||   | ||| |  |   || ||   ||| | ||||   |   |||||  |  |  |   
ACTGGAAGTTCGGCGAATCGGGGAACAAGTACTTCCGGCATGCTACCGGTCAATTATATGCTGTTTCAAAGGACCTGGCGACTTATATATCTATAAACAAgtgagtcagcaatagcatgggc-ctgaattttctcgagatttacagttcgttttggagccttacattgactta-gctg---ctaataatctgaccgtaacag

upper sequence: LOC_Os02g06840.2 (Oryza sativa), 5'ss of exon 10
lower sequence: Vv12s0059g00640.t01 (Vitis vinifera), 5'ss of exon 9
ATTGGAAATTTGGCGAACCAGGAAACAAATATTTTCGGCATGCTACTGGTCAATTGTATGCTATTTCAAAAGATCTAGCAACCTACATATCTATAAACAGgtgagataacacctg----ttttcatatttacctgtgtgcacatgcacgccttgttctcat-tgttgcacaaa--ctaatgctgattcctctaatccaattgctag------------
||||||||||||| ||  |||||||||||||||| || || ||||| || ||  | ||||| |||||||||||| | || |  || ||||| ||||||  || || |  ||| |     |||  |    ||     |    ||   |   ||||   | || | || || ||   |   | |   ||  | |  |    |||                
ATTGGAAATTTGGTGAGGCAGGAAACAAATATTTCCGTCACGCTACAGGACAGCTATATGCCATTTCAAAAGATTTGGCTAGATATATATCAATAAACCAgtaagttttcacttaccattttcaaggggtaaaaaaggaatcagcaaattcttggattgatgtatttcataatatcctcttccactttttatggttattttgtacatgattattgcag
















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|29682551|gb|CB678826.1|CB678826
EST:     CAATTGTATGCTATTTCAAAAGATCTAGCACCCTACATATCTATAAACAG                         ACATGTCCTCCACAAGTATATAAATGAGGATGTTTCATTAGGAAGTTGGTT
genomic: CAATTGTATGCTATTTCAAAAGATCTAGCAACCTACATATCTATAAACAGgtgagataac ... caattgctagACATGTCCTCCACAAGTATATAAATGAGGATGTTTCATTAGGAAGTTGGTT
EST: gi|86868611|gb|CI332988.1|CI332988
EST:     CAATTGTATGCTATTTCAAAAGATCTAGCAACCTACATATCTATAAACAG                         ACATGTCCTCCACAAGTATATAAATGAGGATGTTTCATTAGGAAGTTGGTT
genomic: CAATTGTATGCTATTTCAAAAGATCTAGCAACCTACATATCTATAAACAGgtgagataac ... caattgctagACATGTCCTCCACAAGTATATAAATGAGGATGTTTCATTAGGAAGTTGGTT
EST: gi|88274436|gb|CI394842.1|CI394842
EST:     CAATTGTATGCTATTTCAAAAGATCTAGCAACCTACATATCTATAAACAG                         ACATGTCCTCCACAAGTATATAAATGAGGATGTTTCATTAGGAAGTTGGTT
genomic: CAATTGTATGCTATTTCAAAAGATCTAGCAACCTACATATCTATAAACAGgtgagataac ... caattgctagACATGTCCTCCACAAGTATATAAATGAGGATGTTTCATTAGGAAGTTGGTT
EST: gi|29657303|gb|CB653578.1|CB653578
EST:     CAATTGTATGCTATTTCAAAAGATCTAGCAACCTACATATCTATAAACAG                         ACATGTCCTCCACAAGTATATAAATGAGGATGTTTCATTAGGAAGTTGGTT
genomic: CAATTGTATGCTATTTCAAAAGATCTAGCAACCTACATATCTATAAACAGgtgagataac ... caattgctagACATGTCCTCCACAAGTATATAAATGAGGATGTTTCATTAGGAAGTTGGTT
EST: gi|87006638|gb|CI295021.1|CI295021
EST:     CAATTGTATGCTATTTCAAAAGATCTAGCAACCTACATATCTATAAACAG                         ACATGTCCTCCACAAGTATATAAATGAGGATGTTTCATTAGGAAGTTGGTT
genomic: CAATTGTATGCTATTTCAAAAGATCTAGCAACCTACATATCTATAAACAGgtgagataac ... caattgctagACATGTCCTCCACAAGTATATAAATGAGGATGTTTCATTAGGAAGTTGGTT