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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGGATGGCCAGATATGCGGATACCAATCTTATACACCATGTCTTGGCCAGACAGAATCTATTGCTCAGAGGTCACCTGGCCCCGACTAGATCTTTGCAAgtacaggctcttcccttaaatgctgtgctacttttgcattaccactgataattttgttcgagaatgacctcaaagaattttagctttcttattgttatcg...

Basic information

species Oryza sativa
transcript LOC_Os01g01710.2
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g01710.2 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G036290_T02 (Zea mays), 5'ss of exon 10
TGGGATGGCCAGATATGCGGATACCAATCTTATACACCATGTCTTGGCCAGACAGAATCTATTGCTCAGAGGTCACCTGGCCCCGACTAGATCTTTGCAAgtacaggctcttcccttaaatgctgtgctacttttgcattaccactgataattttgttcgagaatgacctcaaagaattttagctttcttattgttatcg----
|||||||||| ||||||||||||||||||||||||||| | || |||||||| |||||||||||||| |||||||| |||||||| ||| |||||||||||||     ||||| |  || | ||| |||||||||||| |||  |||||  |||| || |  ||||||||| |||||||  |  |  |||||| || | |    
TGGGATGGCCGGATATGCGGATACCAATCTTATACACCTTATCGTGGCCAGATAGAATCTATTGCTCGGAGGTCACGTGGCCCCGTCTAAATCTTTGCAAgtatgacatcttcac--aactcctgggctacttttgcagtacagctgatgcttttatttggaaatgacctccaagaattccaagt--cttatttttctggatta

upper sequence: LOC_Os01g01710.2 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G056975_T02 (Zea mays), 5'ss of exon 10
TGGGATGGCCAGATATGCGGATACCAATCTTATACACCATGTCTTGGCCAGACAGAATCTATTGCTCAGAGGTCACCTGGCCCCGACTAGATCTTTGCAAgtacaggctcttcccttaaatgctgtgctacttttgcattaccactgataattttgttcgagaatgacctcaaagaattttagctttcttattgtt-atcg--
|||||||||||||||||||| ||||||||||||||||| | || |||||||| |||||||||||||| |||||||||||||| || || ||||||||||||||     |||||    || | ||||||||||| |||| ||| | ||||  |||| || |  |||| |||  |||||||  ||  || || || || ||    
TGGGATGGCCAGATATGCGGTTACCAATCTTATACACCTTATCATGGCCAGATAGAATCTATTGCTCTGAGGTCACCTGGCCTCGTCTGGATCTTTGCAAgtatgacatcttca---aactcctgtgctacttgtgcagtacaattgatgcttttatttggaaatggccttcaagaattcaagtcttatttttcttgattaca

upper sequence: LOC_Os01g01710.2 (Oryza sativa), 5'ss of exon 9
lower sequence: Vv17s0000g08390.t01 (Vitis vinifera), 5'ss of exon 10
TGGGATGGCCAGATATGCGGATACCAATCTTATACACCATGTCTTGGCCAGACAGAATCTATTGCTCAGAGGTCACCTGGCCCCGACTAGATCTTTGCAAgtacaggctcttcccttaaatgctg--tgctacttttgcattaccactgataattttgttcga--gaatgacctcaaagaattttagctttcttattgttatcg
|||| ||||| ||||||||  | |||||| | || ||  | || |||||||||||||| || ||||| ||| | || ||||| ||||| |||||||||||||   |  |  |   |  | || |   ||  | |  ||   ||  ||| |  ||    | | |   |||  | | |  ||     |  || | |     | |  
TGGGGTGGCCTGATATGCGTTTGCCAATCCTCTATACTTTATCGTGGCCAGACAGAATTTACTGCTCTGAGATAACTTGGCCACGACTTGATCTTTGCAAgt---gagtactaagtagactgttaattgtcaatcatggtctaaaacttaccataacttcctattaaatttcttgattgataacaaagttccatgcccatgtg-

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|58653081|gb|CK041761.1|CK041761
EST:     GACAGAATCTATTGCTCAGAGGTCACCTGGCCCCGACTAGATCTTTGCAA                         GCTGGGTTCACTGACATTCAAAGCTCCTGACAATGTGAAATACCCGTCGAT
genomic: GACAGAATCTATTGCTCAGAGGTCACCTGGCCCCGACTAGATCTTTGCAAgtacaggctc ... gataatgcagGCTGGGTTCACTGACATTCAAAGCTCCTGACAATGTGAAATACCCGTCGAT
EST: gi|38478000|gb|CF962133.1|CF962133
EST:     GACAGAATCTATTGCTCAGAGATCACCTGGCCCCGACTAGATCTTTGCAA                         GCTGGGTTCACTGACATTCAAAGCTCCTGACAATGTGAAATACCCGTCGAT
genomic: GACAGAATCTATTGCTCAGAGGTCACCTGGCCCCGACTAGATCTTTGCAAgtacaggctc ... gataatgcagGCTGGGTTCACTGACATTCAAAGCTCCTGACAATGTGAAATACCCGTCGAT