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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCAGAGCGAGAGAGGCTGGGGAGATCAACAAGAGCTTGCTGACACTTGGTCGAGTCATCAATGCTCTTGTTGAACACTCTGGACATGTCCCATACAGgtaattctaaggacagtgtcctggcagatttgattctagaaacattttggcattttgccaagggtgtttatatgttgctccatttaattgttccag

Basic information

species Oryza sativa
transcript LOC_Os05g02670.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g02670.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G024576_T01 (Zea mays), 5'ss of exon 5
GGCAGAGCGAGAGAGGCTGGGGAGATCAACAAGAGCTTGCTGACACTTGGTCGAGTCATCAATGCTCTTGTTGAACACTCTGGACATGTCCCATACAGgtaattctaaggacagtgtcctggcagatttgattctagaaacattttggcattttgccaagggtgtttatatgttgctccatttaattgttccag
|||||||||||||||||||| |||||||||||||| ||||| || |||||||| || || |||||||| || || |||||||||||||| ||||||||||||  ||||| |  |   | || ||| ||||||| ||| ||||  |||        | | |   |||||| |||      || || ||||| |||
GGCAGAGCGAGAGAGGCTGGAGAGATCAACAAGAGTTTGCTCACGCTTGGTCGTGTTATTAATGCTCTAGTAGAGCACTCTGGACATGTACCATACAGgtaaccctaagaatggc-ccttgacagctttgattttagtaacacgttgct------caatgatggtttatgtgt------atctatttgtttcag

upper sequence: LOC_Os05g02670.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA13G40580.1 (Glycine max), 5'ss of exon 6
GGCAGAGCGAGAGAGGCTGGGGAGATCAACAAGAGCTTGCTGACACTTGGTCGAGTCATCAATGCTCTTGTTGAACACTCTGGACATGTCCCATACAGgtaattctaaggacag--tgtcctggcagatttgattctagaaacattttggcattttgccaagggtgtttat-atgttgctccatttaattgttccag---
|| ||||| || |||||||||||||| ||||| |||||||| |||||||| ||||| || ||||| || ||||| ||||| || ||||| ||||| ||||||   |||   ||   | ||  | ||  | | | | |        ||    ||||     || |  ||||| ||   | |  || | ||| ||  |    
GGTAGAGCAAGGGAGGCTGGGGAGATAAACAAAAGCTTGCTTACACTTGGACGAGTGATTAATGCGCTAGTTGAGCACTCAGGTCATGTTCCATATAGgtaagagtaactgcaacttttctagtcaattctcaatttcatttttcttaattatttcctggagtgattttattattaagatatatcttattattatatcag

upper sequence: LOC_Os05g02670.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA12G07910.1 (Glycine max), 5'ss of exon 5
GGCAGAGCGAGAGAGGCTGGGGAGATCAACAAGAGCTTGCTGACACTTGGTCGAGTCATCAATGCTCTTGTTGAACACTCTGGACATGTCCCATACAGgtaattctaaggacagtg-tcctggcagatttgattctagaaac-attttggcattttgccaagggtgtttatatgttgctc---catttaattgttccag
|| ||||| || || ||||||||||| || || |||||||| |||||||||||||| || |||||| | ||||| || || || ||||| ||||| |||||    |    || ||  ||||||      | | | | ||  | | |||   |  | |  ||   || || | | ||  |      |    || |  |||
GGTAGAGCAAGGGAAGCTGGGGAGATAAATAAAAGCTTGCTTACACTTGGTCGAGTGATTAATGCTTTAGTTGATCATTCAGGTCATGTGCCATATAGgtatgaatggctaccgttctcctggttatggtaacttttgattctactttcaaacctagagaaaaatgcttttgtattattaagatgtcccgttatgtcag

upper sequence: LOC_Os05g02670.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA15G04830.1 (Glycine max), 5'ss of exon 5
GGCAGAGCGAGAGAGGCTGGGGAGATCAACAAGAGCTTGCTGACACTTGGTCGAGTCATCAATGCTCTTGTTGAACACTCTGGACATGTCCCATACAGgtaattctaaggacag--tgtcctggcagattt-gattctagaaacattttggcattttgccaagggtgtttatatgttgctccatttaattgttccag---
|| ||||| || |||||||||||||| || || |||||||| |||||||| ||||| || |||||||| ||||| ||||| || ||||| ||||| |||||    |||   ||   | || || ||  | |  |||  |      ||||   |||||   |  | | ||  |||   | |  || | ||| ||  |    
GGTAGAGCAAGGGAGGCTGGGGAGATAAATAAAAGCTTGCTTACACTTGGACGAGTGATTAATGCTCTAGTTGAGCACTCAGGTCATGTTCCATATAGgtatgagtaactgcaacttttcttgtcaattctcaatttcattttttttttattattttctgagtgattttattattaagatatatcttattattatatcag

upper sequence: LOC_Os05g02670.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA11G15520.2 (Glycine max), 5'ss of exon 5
GGCAGAGCGAGAGAGGCTGGGGAGATCAACAAGAGCTTGCTGACACTTGGTCGAGTCATCAATGCTCTTGTTGAACACTCTGGACATGTCCCATACAGgtaattctaaggacagtg-tcctggcagatttgattctagaaac-attttggcattttgccaagggtgtttatatgttgctc---catttaattgttccag
|| ||||| || || ||||||||||| || || |||||||| |||||||||||||| || |||||||| ||||| || || || ||||| || || |||||    |    || ||  | ||||      | | | | ||  | |||||   |  | |  ||   || || | | ||  |      |   ||| |  |||
GGTAGAGCAAGGGAAGCTGGGGAGATAAATAAAAGCTTGCTTACACTTGGTCGAGTGATTAATGCTCTAGTTGATCATTCAGGTCATGTGCCTTATAGgtatgaatggctaccgttcttctggttatggtaacttttgattctattttcaaacctagagaaaaatgcttttgtattattaagatgtcccattatatcag

upper sequence: LOC_Os05g02670.2 (Oryza sativa), 5'ss of exon 7
lower sequence: AT2G28620.1 (Arabidopsis thaliana), 5'ss of exon 5
GGCAGAGCGAGAGAGGCTGGGGAGATCAACAAGAGCTTGCTGACACTTGGTCGAGTCATCAATGCTCTTGTTGAACACTCTGGACATGTCCCATACAGgtaattctaaggacagtgtcctggcagatttgattctagaaacattttggcattttgccaagggtgttta--tatgttgctccatttaattg--ttccag
|| ||||| || || ||||| ||||||||||| || ||||| |||||||| || ||||| |||||| | |||||||||||||| ||  | ||||| ||||||    || ||   || | |   | || |   ||| |  |  |||||  |      | |  || | ||   ||||   |  |   | ||   || |||
GGTAGAGCCAGGGAAGCTGGTGAGATCAACAAAAGTTTGCTCACACTTGGACGTGTCATAAATGCTTTGGTTGAACACTCTGGTCACATTCCATATAGgtaacag-aaagattctgccttca-atatctctctctcgggaagttttgagacaagatctaatgtttctaaccatgtgattatacacatttaaatttcag

upper sequence: LOC_Os05g02670.2 (Oryza sativa), 5'ss of exon 7
lower sequence: AT3G45850.1 (Arabidopsis thaliana), 5'ss of exon 6
GGCAGAGCGAGAGAGGCTGGGGAGATCAACAAGAGCTTGCTGACACTTGGTCGAGTCATCAATGCTCTTGTTGAACACTCTGGACATGTCCCATACAGgta---------attctaaggacagtg-tcctggcagatttg---attctagaaacattt--tggcattttgccaagggtgtttatat-gttgctccatttaattgttccag
||  |||| ||||| ||||| |||||||||||||| || || || ||||| || ||||| || || ||||| || |||||||| ||| | || ||||||||         | |  |  || |  | |  |     || |     |||| |     ||   |     |||| ||   | || ||    | |  | | ||| | | || |||
GGACGAGCCAGAGAAGCTGGAGAGATCAACAAGAGTTTACTTACTCTTGGCCGTGTCATTAACGCGCTTGTGGAGCACTCTGGTCATATTCCTTACAGgtacaagtgatcacttgatagaaaacgataataagtaatctccttgttcttggtgtcttcagtattggtttgacattagagtatactcagctattgcttttgaat-tttcag

upper sequence: LOC_Os05g02670.2 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv06s0004g03810.t01 (Vitis vinifera), 5'ss of exon 6
GGCAGAGCGAGAGAGGCTGGGGAGATCAACAAGAGCTTGCTGACACTTGGTCGAGTCATCAATGCTCTTGTTGAACACTCTGGACATGTCCCATACAGgtaattctaaggacagtgtcctggcagatttgattctagaaacat----tttggcattttgccaagggtgttta-tatgttgctccatttaattgttccag-------
|||||||| || || ||||||||||| || || |||||||| || ||||| || || || ||||| || ||||| |||||||| ||||| ||||| |||||           | |      | | |||  ||| | |  | ||    ||||   ||   |  ||    |    |  | |  |  |    ||||    |        
GGCAGAGCAAGGGAAGCTGGGGAGATAAATAAAAGCTTGCTTACTCTTGGGCGTGTTATTAATGCGCTGGTTGAGCACTCTGGTCATGTTCCATATAGgtatgaactgcataattagttcagtaaatt--attattggcatatgaggtttgattttgaacttagaaattgaggtgaggtaattaaaaagattgcctgaaatatcag

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|58664623|gb|CK053309.1|CK053309
EST:     GGTCGAGTCATCAATGCTCTTGTTGAACACTCTGGACATGTCCCATACAG                         AGATAGCAAACTGACAAGATTGCTAAGAGACTCATTGGGAGGGAAAACAAA
genomic: GGTCGAGTCATCAATGCTCTTGTTGAACACTCTGGACATGTCCCATACAGgtaattctaa ... attgttccagAGATAGCAAACTGACAAGATTGCTAAGAGACTCATTGGGAGGGAAAACAAA