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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGCAAGGACTACGGCCGCCTCGTCGTCATCGTTGATGTCGTCGACCAGAACCGGgtaagcatcgtcttctctcgtacgccttgaactgtttccatttgtacccgctttataatttggatctatagaaattatactagtactagctggtgtgata...

Basic information

species Oryza sativa
transcript LOC_Os02g40880.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g40880.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G140116_T01 (Zea mays), 5'ss of exon 2
GTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGCAAGGACTACGGCCGCCTCGTCGTCATCGTTGATGTCGTCGACCAGAACCGGgtaagcatcgtcttctct-cgtacgccttgaactgtttccatttgtacccgctttataatt-tggatctatagaaattatactagtactagctg-gtgtgata
||||||||||||||||||||||||||| ||||||||||||||||||||  ||||||| ||||| ||||| |||||||| ||||| |||||||||||| ||||||| |  | | | |   |    || ||| |||    |   | |||   | ||| ||  |   |||||     |   ||   |  | | ||||  | || ||
GTTCAAGAGGTTCGTGGAGATCGGGCGCGTGGCCCTGGTGAACTACGGGGAGGACTATGGCCGTCTCGTTGTCATCGTCGATGTGGTCGACCAGAACAGGgtaaggactgacctttaggctcgtgctttgtacta---ctggtagtaatgggtttgtatctgctgatcttcgttagaaatgtgaacaatcgctgtatttggta

upper sequence: LOC_Os02g40880.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G168330_T02 (Zea mays), 5'ss of exon 2
GTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGCAAGGACTACGGCCGCCTCGTCGTCATCGTTGATGTCGTCGACCAGAACCGGgtaagcatcgtcttctctcgtacgccttgaactgtttccatttgtacccgctttataatttggatctatagaaattatactagtactagctggtgtgata--
||||||||||||||||||||||||||| |||||||| |||||||||||||| |||||||||||||||||||||||||| ||||| |||||||||||| ||||| | |  |   |||||| ||      |    |||    |   |       ||   || | || || ||||    || ||  |  ||    || || |   
GTTCAAGAGGTTCGTGGAGATCGGGCGCGTGGCCCTTGTGAACTACGGCAAAGACTACGGCCGCCTCGTCGTCATCGTCGATGTGGTCGACCAGAACAGGgtatgtactgagctctctcataaatgc-gtgtcgttctgttcgctgttgtgatttcgatctagagctttagagga-atgcttttgatatagtgtttggttcc

upper sequence: LOC_Os02g40880.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA20G35000.1 (Glycine max), 5'ss of exon 2
GTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGCAAGGACTACGGCCGCCTCGTCGTCATCGTTGATGTCGTCGACCAGAACCGGgtaag-catcgtcttctctcgtacgccttgaactgtttccatttgtacccgctttataatttggatctatagaaattatactag---tactagctggtgtgata-------
 |||||||||| ||| ||||||||| |||| ||||   | |||||||||||||| || ||| | ||||||||||| || || ||| | ||||||||| | ||||  |  |  |  | | |     | |     | ||  |||||   | | |    |    ||  |   ||||| |  | || |   |  |        | |||       
TTTCAAGAGGTACGTTGAGATCGGGAGGGTTGCCCAAATCAACTACGGCAAGGAATATGGCAGGCTCGTCGTCATTGTCGACGTCATTGACCAGAACAGAgtaactccccaccaccacccaagttcttacctttattcacatttacgcacacccatttgcatgttttcttagaattagttcttgctttgttgataatcctaataatattag

upper sequence: LOC_Os02g40880.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA10G32580.1 (Glycine max), 5'ss of exon 2
GTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGCAAGGACTACGGCCGCCTCGTCGTCATCGTTGATGTCGTCGACCAGAACCGGgtaagcatcgtcttctctcgtacgccttgaactgtttccatttgtacccgctttataatttggatctatagaaattat-actagtactagctggtg-tgata----
 |||||||||| ||| ||||||||| |||| || |   | |||||||||||||| || ||| | |||||||||||||| || ||| | ||||||||| | |||| |  |  |  | | |     | |     || |  |||||   |   |    |    ||  |   ||||| |  |   |  |  | | || || | |||    
TTTCAAGAGGTACGTTGAGATCGGGAGGGTTGCTCAAATCAACTACGGCAAGGAATATGGCAGGCTCGTCGTCATCGTCGACGTCATTGACCAGAACAGAgtaacc-cctccaccacccaatttcttacctttgatcacatttaagcatacccatttgcatgttttcttagaagtagttgttttttgttgttgatgataataatag

upper sequence: LOC_Os02g40880.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA03G06380.1 (Glycine max), 5'ss of exon 2
GTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGCAAGGACTACGGCCGCCTCGTCGTCATCGTTGATGTCGTCGACCAGAACCGGgtaagcatcgtcttctctcgtacgccttgaact--gtttccatttgtacccgctttataatttggatctatagaaattatactag---tactagctggtgtgata-------
 ||||||||||  || ||||| ||| ||||  |||   | |||||||||||||| || ||| | ||||||||||| || |||||| | ||||||||| | ||||   ||       | |  | |   | | ||   ||  |||||  || |      |    ||  |   ||||| |  | || |   |  |        | |||       
TTTCAAGAGGTATGTTGAGATTGGGAGGGTTTCCCAAATCAACTACGGCAAGGAATATGGCAGGCTCGTCGTCATTGTCGATGTCATTGACCAGAACAGAgtaactctcccaccaccacccaagttcttacctttattcacatttacacacaaccatttgcatgctttcttagaattagttcttgctttgttgataatcctaataatattag

upper sequence: LOC_Os02g40880.1 (Oryza sativa), 5'ss of exon 2
lower sequence: Vv05s0049g01310.t01 (Vitis vinifera), 5'ss of exon 3
GTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGCAAGGACTACGGCCGCCTCGTCGTCATCGTTGATGTCGTCGACCAGAACCGGgtaagcatcgtcttctctcgtacgccttgaactgtttccatttgtacccgctttataatttggatctatagaaattata--ctagtactagctggtgtgata
 |||||| ||| ||||||| ||||||| || || || || |||||||| || ||||||||| | ||||||||||| || || ||| | || ||||| |||||| |  |  |  | | || |     |||  || | |    |||     |     |  |  | |||     ||  ||     |  |  |  ||| |||    
TTTCAAGCGGTACGTGGAGGTCGGGCGAGTCGCTCTCGTCAACTACGGAAAAGACTACGGCAGGCTCGTCGTCATAGTCGACGTCATTGATCAGAATCGGgtatgtgtttttctttttcattttatttgctctttgtttggttgc-tgggaaagttggtgagtatcggagaaatctaagggtttatgttttctgttgtttc-

upper sequence: LOC_Os02g40880.1 (Oryza sativa), 5'ss of exon 2
lower sequence: Vv11s0118g00670.t01 (Vitis vinifera), 5'ss of exon 3
GTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGCAAGGACTACGGCCGCCTCGTCGTCATCGTTGATGTCGTCGACCAGAACCGGgtaagcatcgtcttctctcgtacgccttgaactgtttccatttgtacccgctttataatttggatctatagaaattatactagtactagctggtgtgata-
 |||||| ||| ||||||||||||||| || || || || ||||||||||| || |||||| | ||||||||||| || |||||| | || ||||| |||||| |  |     | | | || |    |    |  |  |  ||||   |      | || |        || | |  | || | ||         | ||  
TTTCAAGCGGTACGTGGAGATCGGGCGAGTCGCTCTCGTCAACTACGGCAAAGAATACGGCAGGCTCGTCGTCATAGTCGATGTCATTGATCAGAATCGGgtatgtgtgaatgtgtgt-gtgcttgatttcatcctctcggttgttttctaagagttatctcagcaacgagtagtggttctggaacggaaaaccttaattt

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|86599617|gb|CI253602.1|CI253602
EST:     AGGACTACGGCCGCCTCGTCGTCATCGTTGATGTCGTCGACCAGAACCGG                         GCACTTGTGGATGCTCCTGACATGGTCAGGTGCCAGATCAACTTCAAGAGG
genomic: AGGACTACGGCCGCCTCGTCGTCATCGTTGATGTCGTCGACCAGAACCGGgtaagcatcg ... gaatcaccagGCACTTGTGGATGCTCCTGACATGGTCAGGTGCCAGATCAACTTCAAGAGG