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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCAGAATTTATTGATAGATCGGCGTACTAATGCACTGAAGCTTGCAGACTTTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACGTTTACTCACGAGgtactatagatttgtgttcaacattttgttttcttcataaagtacattttttttcgtcataaagttcatttttcatttaccttttctatacactagcacattaactcacaatggatgtctatgggaagtatttttcag

Basic information

species Oryza sativa
transcript LOC_Os03g02680.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g02680.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G008327_T01 (Zea mays), 5'ss of exon 4
TCAGAATTTATTGATAGATCGGCGTACTAATGCACTGAAGCTTGCAGACTTTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACGTTTACTCACGAGgtac------tata----gatttgtgttcaacattttgttttcttc-------ataaagtacattttttttcgtcataaagtt-----------catttttcattt----------accttttc---tatacactag-cacattaactcacaatggatgtctatgggaagtatttttcag
||| || ||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| || |||||||| |||||||      |||      | ||| |      | | ||  || | |         |||  | ||| |      |   ||||||           || |||| |             |||||||    ||||  |||| |||||||| ||||| |  || ||||||| |||||||||||||
TCAAAACTTATTGATAGATCGGCGCACTAATGCACTGAAGCTTGCAGACTTTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGTACATTTACTCATGAGgtacatttgttatgctctaacttgagaaagggagtctgaattgtcctgttagggaaaaaaatattgtgagggatgccaaagttatggattcccacaatttttacccgaataacgtaaccttttgctgtatattctagtcacattaattcacagtacatatctatgg-aagtatttttcag

upper sequence: LOC_Os03g02680.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G143213_T02 (Zea mays), 5'ss of exon 4
TCAGAATTTATTGATAGATCGGCGTACTAATGCACTGAAGCTTGCAGACTTTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACGTTTACTCACGAGgta------ctata--gatttgtgttcaacat-----------tttg--ttttcttcataaagtacattttttttcg------------tcataaagttcatt--tttcat------------ttaccttttcta---tacactag-cacattaactcacaatggatgtctatgggaagtatttttcag
|||||| || |||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||| || |||||||| ||||||      ||||   | ||  || | ||| |           ||||  || || |  ||  | | |  | || |              | ||  |   ||    ||| ||            | ||||||| |    ||  |||| || || ||||||  ||  || ||||||| |||||||||||||
TCAGAACTTGTTGATAGATCGGCGTAATAATGCACTGAAGCTTGCAGACTTTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGTACATTTACTCATGAGgtaaatttgctatgctgcttattgcttaacttgagaaagggagtttgaattatcctattagggaaaaaatattgtgaggggtgccaaaattatggatcccaccgattttatacccatataacataaccttttgttgtctattctagtcatatcaactca--atacatatctatgg-aagtatttttcag

upper sequence: LOC_Os03g02680.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA09G03470.1 (Glycine max), 5'ss of exon 4
TCAGAATTTATTGATAGATCGGCGTACTAATGCACTGAAGCTTGCAGACTTTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACGTTTACTCACGAGgtactatagatttgtgttcaacattttgttttcttcataaagtacattttttttcgtcataaagttcatttttcatttaccttttctatacactagcacattaactcacaatggatgtctatgggaagtatttttcag
 |||||||| ||||||||||| ||||||||| |||||||||||||||| ||||| || || ||||||||||| ||||||||| | || ||||| || |||||         |||||| | || || | |   |||| |  ||| ||||  |     | ||||| || |  |   |||  | |||||   |||  |  |   ||   ||  |||                         
ACAGAATTTGTTGATAGATCGCCGTACTAATTCACTGAAGCTTGCAGATTTTGGATTGGCTAGGGCATTTGGCATTCCTGTCAGGACCTTTACACATGAGgt---------ttgtgtgctaccttatatgagcttc-tctagt-cattgatgcagataataaaattgaaatgg-attggctttttc---acaagaaaatgatatgccattatgct-----------------------

upper sequence: LOC_Os03g02680.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA15G14390.1 (Glycine max), 5'ss of exon 4
TCAGAATTTATTGATAGATCGGCGTACTAATGCACTGAAGCTTGCAGACTTTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACGTTTACTCACGAGgtactatagatttgtgttcaacattttgttttcttcataaagtacattttttttcgtcataaagttcatttttcatttaccttttctat-acactagcacattaactcacaatggatgtctatgggaagtatttttcag
 |||||||| ||||||||||| ||||||||| |||| ||||||||||| ||||| || || ||||||||||| ||||||||| | || ||||| || |||||         |||||| | || || | | | ||||    ||| |||   |     | ||||| || |  |   | | | |||||| || | | ||  ||||   || |   ||                         
ACAGAATTTGTTGATAGATCGCCGTACTAATTCACTAAAGCTTGCAGATTTTGGATTGGCTAGGGCATTTGGCATTCCTGTCAGGACATTTACACATGAGgt---------ttgtgtcctaccttatatgtgcttct---agt-catccatgcatataataaaattgaaatg--aatgagcttttccatgagaatatgacatgcccttatgctgt------------------------

upper sequence: LOC_Os03g02680.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA05G25320.1 (Glycine max), 5'ss of exon 3
TCAGAATTTATTGATAGATCGGCGTACTAATGCACTGAAGCTTGCAGACTTTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACGTTTACTCACGAGgtactatagatttgtgttcaacattttgttttcttcataaagtacattttttttcgtcataaagttcatttttcatttaccttttctatacactagcacattaactcacaatggatgtctatgggaagtatttttcag
 |||||||| |||||||||||  | |||||||||||||| |||||||| ||||| || |||||||| ||||||||||||||  | || ||||| || |||||         |||||| | || || |  |   |||           ||   || |  ||||  |  | |||  | |||       |||  |||||   |  ||  | ||       | |                  
ACAGAATTTGTTGATAGATCGCAGCACTAATGCACTGAAACTTGCAGATTTTGGATTGGCCAGGGCTTTTGGAATTCCTGTTAGGACATTTACACATGAGgt---------ttgtgtgctaccttgtactgggttc-----------ttaccttggatataat-taaactttgaaattaatgggcttatgtactagagaagaaatactcatgcagcatttt-----------------

upper sequence: LOC_Os03g02680.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA08G08330.1 (Glycine max), 5'ss of exon 4
TCAGAATTTATTGATAGATCGGCGTACTAATGCACTGAAGCTTGCAGACTTTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACGTTTACTCACGAGgtactatagatttgtgttcaacattttgttttcttcataaagtacattttttttcgtcataaagttcatttttcatttaccttttctatacactagcacattaactcacaatggatgtctatgggaagtatttttcag
 |||||||| |||||||||||  | | ||||||||| || |||||||| ||||| || || ||||| ||||||||||||||  | || ||||| || |||||         |||||| | ||  | |  |   |||           |    || |  ||||  |  |||||  | |||       |||  |||||   || ||  | ||       | |                  
ACAGAATTTGTTGATAGATCGCAGCAATAATGCACTAAAACTTGCAGATTTTGGATTGGCTAGGGCTTTTGGAATTCCTGTTAGGACATTTACACATGAGgt---------ttgtgtgctaccctgtactgggttc-----------tgaccttggatataat-taaattttgaaattaatgcgcatatgtactagagtataaatactcatgcagcatttt-----------------

upper sequence: LOC_Os03g02680.1 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv15s0045g00310.t01 (Vitis vinifera), 5'ss of exon 5
TCAGAATTTATTGATAGATCGGCGTACTAATGCACTGAAGCTTGCAGACTTTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACGTTTACTCACGAGgtactatagatttgtgttcaacattttgttttcttcataaagtacattttttttcgtcataaagttcatttttcatttaccttttctatacactagcacattaactcacaatggatgtctatgggaagtatttttcag
 ||||| ||| | |||||||| ||||| |||||| | ||||| ||||||||||| || || || |||||||| ||||||||  | || ||||| || ||||||  |   || ||   ||    |    | |||  ||| |      |||||  || | |    ||   |   || || |   | | |    | || || || || |                                
CCAGAACTTACTCATAGATCGTCGTACCAATGCATTAAAGCTGGCAGACTTTGGATTGGCAAGAGCATTTGGTATTCCTGTTAGGACATTTACACATGAGgtatca---atgtgcaatccgtgtgacctcttccacatga------tttttcctctttacttggtatttgcatctttaataatatttg---attatcatatcaattttttgc--------------------------

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|29658305|gb|CB654580.1|CB654580
EST:     TTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACGTTTACTCACGAG                         GTTGTAACCTTGTGGTATAGAGCTCCAGAGATCCTTCTTGGATCAAGGCAG
genomic: TTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACGTTTACTCACGAGgtactataga ... tatttttcagGTTGTAACCTTGTGGTATAGAGCTCCAGAGATCCTTCTTGGATCAAGGCAG
EST: gi|86499530|gb|CI142163.1|CI142163
EST:     TTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACGTTTACTCACGAG                         GTTGTAACCTTGTGGTATAGAGCTCCAGAGATCCTTCTTGGATCAAGGCAG
genomic: TTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACGTTTACTCACGAGgtactataga ... tatttttcagGTTGTAACCTTGTGGTATAGAGCTCCAGAGATCCTTCTTGGATCAAGGCAG
EST: gi|58682943|gb|CK071630.1|CK071630
EST:     TTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACGTTTACTCACGAG                         GTTGTAACCTTGTGGTATAGAGCTCCAGAGATCCTTCTTGGATCAAGGCAG
genomic: TTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACGTTTACTCACGAGgtactataga ... tatttttcagGTTGTAACCTTGTGGTATAGAGCTCCAGAGATCCTTCTTGGATCAAGGCAG
EST: gi|218491447|gb|FG947046.1|FG947046
EST:     TTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACGTTTACTCACGAG                         GTTGTAACCTTGTGGTATAGAGCTCCAGAGATCCTTCTTGGATCAAGGCAG
genomic: TTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACGTTTACTCACGAGgtactataga ... tatttttcagGTTGTAACCTTGTGGTATAGAGCTCCAGAGATCCTTCTTGGATCAAGGCAG
EST: gi|29688121|gb|CB684396.1|CB684396
EST:     TTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACGTTTACTCACGAG                         GTTGTAACCTTGTGGTATAGAGCTCCAGAGATCCTTCTTGGATCAAGGCAG
genomic: TTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACGTTTACTCACGAGgtactataga ... tatttttcagGTTGTAACCTTGTGGTATAGAGCTCCAGAGATCCTTCTTGGATCAAGGCAG
EST: gi|87021528|gb|CI274135.1|CI274135
EST:     TTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACATTTACTCACGAG                         GTTGTAACCTTGTGGTATAGAGCTCCAGAGATCCTTCTTGGATCAAGGCAG
genomic: TTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACGTTTACTCACGAGgtactataga ... tatttttcagGTTGTAACCTTGTGGTATAGAGCTCCAGAGATCCTTCTTGGATCAAGGCAG
EST: gi|163918232|gb|EG715284.1|EG715284
EST:     TTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACGTTTACTCACGAG                         GTTGTAACCTTGTGGTATAGAGCTCCAGAGATCCTTCTTGGATCAAGGCAG
genomic: TTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACGTTTACTCACGAGgtactataga ... tatttttcagGTTGTAACCTTGTGGTATAGAGCTCCAGAGATCCTTCTTGGATCAAGGCAG
EST: gi|157650675|gb|EX450309.1|EX450309
EST:     TTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACGTTTACTCACGAG                         GTTGTAACCTTGTGGTATAGAGCTCCAGAGATCCTTCTTGGATCAAGGCAG
genomic: TTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACGTTTACTCACGAGgtactataga ... tatttttcagGTTGTAACCTTGTGGTATAGAGCTCCAGAGATCCTTCTTGGATCAAGGCAG
EST: gi|8860073|gb|AU097391.1|AU097391
EST:     TTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACGTTTACTCACGAG                         GTTGTAACCTTGTGGTATAGAGCTCCCAGAGATCCTTCTTGGATCAAGGCA
genomic: TTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACGTTTACTCACGAGgtactataga ... tatttttcagGTTGTAACCTTGTGGTATAGAGCT-CCAGAGATCCTTCTTGGATCAAGGCA