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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAAACGCACAAAACAGTTTTCTGGTGGATGGCGCATGAGAATTGCTCTAGCACGTGCTCTCTTCATTGAGCCTGATTTGTTGCTACTTGATGAGCCAACAgtaagtttaaaaacatgaatttgtttcatctctttctggcctatgctaacaagatattattttgcag

Basic information

species Oryza sativa
transcript LOC_Os02g58020.3
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g58020.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G013890_T01 (Zea mays), 5'ss of exon 6
TAAACGCACAAAACAGTTTTCTGGTGGATGGCGCATGAGAATTGCTCTAGCACGTGCTCTCTTCATTGAGCCTGATTTGTTGCTACTTGATGAGCCAACAgtaagtttaaaaacatgaatt-tgtttcatctctttctggcctatgctaacaagatattattttgcag
 || || |||||||| |||||||||||||||||||||||||| ||||||||||||||||| |||||||||||||||||| | |||||||||||||| ||||||||||  |||    |  || | |||| || ||| || ||  |||||||     ||| | ||| |||
CAAGCGTACAAAACAATTTTCTGGTGGATGGCGCATGAGAATAGCTCTAGCACGTGCTCTGTTCATTGAGCCTGATTTGCTACTACTTGATGAGCCGACAgtaagttggaaatgtggggttatttttcttcacttgcttgcacatgctaaagctgtatcactttccag

upper sequence: LOC_Os02g58020.2 (Oryza sativa), 5'ss of exon 6
lower sequence: Vv02s0025g02160.t01 (Vitis vinifera), 5'ss of exon 6
TAAACGCACAAAACAGTTTTCTGGTGGATGGCGCATGAGAATTGCTCTAGCACGTGCTCTCTTCATTGAGCCTGATTTGTTGCTACTTGATGAGCCAACAgtaagtttaaaaacatgaatttgtttca-----tctctttctggcctatgctaacaagatattattttgcag-----------------------
||||   ||||||   |||||||| |||||||| ||| |||||||||| || ||||| || || || ||||||||||| || ||||||||||| || || |||  |    |   ||  |  |  ||||     | | | | |  | |     ||   | ||  | || |||                        
TAAAGCGACAAAAACCTTTTCTGGAGGATGGCGAATGCGAATTGCTCTTGCTCGTGCACTGTTTATAGAGCCTGATTTATTACTACTTGATGAACCCACGgtacatcatgattgatagaacttcttcagagtatatgtatattacttggcagaattgggtaaaactt-gcattttttatttttatttttttgcag
















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|218482666|gb|FG970229.1|FG970229
EST:     CACGTGCTCTCTTCATTGAGCCTGATTTGTTGCTACTTGATGAGCCAACA                         AATCATCTTGATCTCCATGCTGTGTTATGGTTAGAAACATATCTCCTGAAA
genomic: CACGTGCTCTCTTCATTGAGCCTGATTTGTTGCTACTTGATGAGCCAACAgtaagtttaa ... tattttgcagAATCATCTTGATCTCCATGCTGTGTTATGGTTAGAAACATATCTCCTGAAA
EST: gi|29662747|gb|CB659022.1|CB659022
EST:     CACGTGCTCTCTTCATTGAGCCTGATTTGTTGCTACTTGATGAGCCAACA                         AATCATCTTGATCTCCATGCTGTGTTATGGTTAGAAACATATCTCCTGAAA
genomic: CACGTGCTCTCTTCATTGAGCCTGATTTGTTGCTACTTGATGAGCCAACAgtaagtttaa ... tattttgcagAATCATCTTGATCTCCATGCTGTGTTATGGTTAGAAACATATCTCCTGAAA
EST: gi|29644366|gb|CB649373.1|CB649373
EST:     CACGTGCTCTCTTCATTGAGCCTGATTTGTTGCTACTTGATGAGCCAACA                         AATCATCTTGATCTCCATGCTGTGTTATGGTTAGAAACATATCTCCTGAAA
genomic: CACGTGCTCTCTTCATTGAGCCTGATTTGTTGCTACTTGATGAGCCAACAgtaagtttaa ... tattttgcagAATCATCTTGATCTCCATGCTGTGTTATGGTTAGAAACATATCTCCTGAAA
EST: gi|24468674|gb|CA305623.1|CA305623
EST:     CACGTGCTCTCTTCATTGAGCCTGATTTGTTGCTACTTGATGAGCCAACA                         AATCATCTTGATCTCCATGCTGTGTTATGGTTAGAAACATATCTCCTGAAA
genomic: CACGTGCTCTCTTCATTGAGCCTGATTTGTTGCTACTTGATGAGCCAACAgtaagtttaa ... tattttgcagAATCATCTTGATCTCCATGCTGTGTTATGGTTAGAAACATATCTCCTGAAA
EST: gi|88311922|gb|CI577528.1|CI577528
EST:     CACGTGCTCTCTTCATTGAGCCTGATTTGTTGCTACTTGATGAGCCAACA                         AATCATCTTGATCTCCATGCTGTGTTATGGTTAGAAACATATCTCCTGAAA
genomic: CACGTGCTCTCTTCATTGAGCCTGATTTGTTGCTACTTGATGAGCCAACAgtaagtttaa ... tattttgcagAATCATCTTGATCTCCATGCTGTGTTATGGTTAGAAACATATCTCCTGAAA
EST: gi|58602069|gb|CK012597.1|CK012597
EST:     CACGTGCTCTCTTCATTGAGCCTGATTTGTTGCTACTTGATGAGCCAACA                         AATCATCTTGATCTCCATGCTGTGTTATGGTTAGAAACATATCTCCTGAAA
genomic: CACGTGCTCTCTTCATTGAGCCTGATTTGTTGCTACTTGATGAGCCAACAgtaagtttaa ... tattttgcagAATCATCTTGATCTCCATGCTGTGTTATGGTTAGAAACATATCTCCTGAAA