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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACATTTGTTGGAACTCCCTTTTGGATGGCACCTGAGGTTATTCAAAACTCTGACGGGTACAATGAAAAGgtagctgtgcgtttttctttaaacagtttgctgcttactgaactttttacccaagtctgtgtcctgatgcag

Basic information

species Oryza sativa
transcript LOC_Os07g32400.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g32400.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G027756_T02 (Zea mays), 5'ss of exon 5
ACATTTGTTGGAACTCCCTTTTGGATGGCACCTGAGGTTATTCAAAACTCTGACGGGTACAATGAAAAGgtagctgtgcgtttttctttaaacagtttgctgcttactgaactttt-tacccaagtctgtgtcctgatgcag
||||||||||||||||||||||||||||||||||||||||||||||| ||||| ||||||||||| ||||||  ||||| |||     |||| |  ||  |   || ||| ||||| ||  |||| |||| ||   ||||||
ACATTTGTTGGAACTCCCTTTTGGATGGCACCTGAGGTTATTCAAAATTCTGAAGGGTACAATGAGAAGgtacttgtgcatttg---ctaaataaatttattagtagtgagcttttatagacaaggctgtttc--aatgcag

upper sequence: LOC_Os07g32400.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA12G27300.1 (Glycine max), 5'ss of exon 9
ACATTTGTTGGAACTCCCTTTTGGATGGCACCTGAGGTTATTCAAAACTCTGACGGGTACAATGAAAAGgtagctgtgc-gtttttctttaaacagtttgct--gcttactgaactttttacccaagtctgtgtcctgatgcag---------------------------------------------------------------
|| ||||| ||||| || |||||||||||||| |||||||||||||| || || || || ||||| |||||     |   |||  |  | |||   |||  |  |||| ||||  ||  | |  |  | | | |  | || |                                                                 
ACCTTTGTAGGAACACCGTTTTGGATGGCACCCGAGGTTATTCAAAATTCAGAAGGATATAATGAGAAGgttatcttatagttactactcaaatcatttattatgctttctgag-ttcatcctaacatatttcttttcatcctctgttcctttattgtttttgtttttatcccctaagaatcatcactctgtatcttgtttatacag

upper sequence: LOC_Os07g32400.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA06G36130.3 (Glycine max), 5'ss of exon 8
ACATTTGTTGGAACTCCCTTTTGGATGGCACCTGAGGTTATTCAAAACTCTGACGGGTACAATGAAAAGgtagctgtgc-gtttttctttaaacagtttgctgcttactgaactttttacccaagtctgtgtcctgatgcag---------------------------------------------------------------
|| ||||| ||||| || ||||||||||| |||||||||||||||||||| || || || ||||  ||||||  | |   |||  |    |||   |||     ||  |  | ||  | |  |  | | | |  | || |                                                                 
ACCTTTGTAGGAACACCATTTTGGATGGCTCCTGAGGTTATTCAAAACTCAGAAGGATATAATGTGAAGgtatttttatagttactacaaaaatcatttatgttttctttgagttcatgctaacatgtttctttttattctctgttcctttattgtttttgtttttatcccctaagaatcatcactctgtatcttgtttatacag

upper sequence: LOC_Os07g32400.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA12G35510.1 (Glycine max), 5'ss of exon 8
ACATTTGTTGGAACTCCCTTTTGGATGGCACCTGAGGTTATTCAAAACTCTGACGGGTACAATGAAAAGgtagctgtgcgtttttctttaaacagttt------gctgcttactgaactt-tttacccaagtctgtgtcctgatgcag--------------------------------------------------
|||||||| ||||| || || ||||||||||||||||||||||| ||  | || || || ||||| ||||| |   |   |||    | || |  |||      | | ||   ||    | |||  |||  | | | | | | |   |                                                  
ACATTTGTAGGAACACCATTCTGGATGGCACCTGAGGTTATTCAGAATACAGATGGATATAATGAGAAGgttgtaatatatttagtctaaatctcttttgttatgtttctctttggttctgtttttccacctttattttcagtttgtgatagtcattggattttttagaatcatcactggagtattctgtttttgcag

upper sequence: LOC_Os07g32400.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA13G34970.1 (Glycine max), 5'ss of exon 9
ACATTTGTTGGAACTCCCTTTTGGATGGCACCTGAGGTTATTCAAAACTCTGACGGGTACAATGAAAAGgtagctgtgcgtttttctttaaacagttt------gctgcttactgaactttttacccaagtctgtgtcctgatgcag-------------------------------------------------
|||||||| ||||| || || ||||||||||||||||||||||| ||  |||| || || ||||| ||||| |   |   |||    | || |  |||      | | ||   ||    | ||     |   |   |  |  |                                                     
ACATTTGTAGGAACACCATTCTGGATGGCACCTGAGGTTATTCAGAATACTGATGGATATAATGAGAAGgttgtaatatatttagtctaaatctcttttgttatgtttctctttggttctgttttttcacctttatttttagtttgttagtcattgtttttcttagaatcatcactggagtaatctgtttttgcag

upper sequence: LOC_Os07g32400.2 (Oryza sativa), 5'ss of exon 8
lower sequence: AT3G15220.1 (Arabidopsis thaliana), 5'ss of exon 9
ACATTTGTTGGAACTCCCTTTTGGATGGCACCTGAGGTTATTCAAAACTCTGACGGGTACAATGAAAAGgtagctgtgcgtttttctttaaacagtttgctgcttactgaactt-----tttac-----ccaagtctgtgtcctgatgcag---------------------------------------------------
|| ||||| ||||| || |||||||||||||| || |||||||| ||||| || ||||| ||||| |||||| ||  || | | |  | |       | || ||  ||  || |     |||       | |    ||| |||| | |||                                                    
ACTTTTGTAGGAACCCCATTTTGGATGGCACCAGAAGTTATTCAGAACTCAGAAGGGTATAATGAGAAGgtatct-cgcctatatactgagcttcacttctcctagcttgacatgtgtgtttgtagaggctatacttgtttcctta-gcatatctaatattttttgccttctttttctgttgctgggattgttgtcatttag

upper sequence: LOC_Os07g32400.2 (Oryza sativa), 5'ss of exon 8
lower sequence: PP1S98_82V6.1 (Physcomitrella patens), 5'ss of exon 8
ACATTTGTTGGAACTCCCTTTTGGATGGCACCTGAGGTTATTCAAAACTCTG---ACGGGTACAATGAAAAGgtagctgtgcgtttttctttaaac----agtttgctgcttactgaa-ctttttacccaagtctgtgtcctgatgcag--------------------------------------------
|| |||||||||||||| || |||||||| || |||||||| || |||||||   | || ||| |||| ||||||  | |     ||   |  | |      || |  |  ||| ||  ||| ||   |   | | | | || || |                                              
ACGTTTGTTGGAACTCCATTCTGGATGGCTCCAGAGGTTATACAGAACTCTGGAGATGGCTACGATGAGAAGgtaattatttaggttgtatcgacccttcgcttagaggagtaccgactcttcttcttcctctttttcttcttattcttgtcaatactccttcaatagctgaaagcagtgcgttttattgcag

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|33796053|gb|CF323894.1|CF323894
EST:     TTTGGATGGCACCTGAGGTTATTCAAAACTCTGACGGGTACAATGAAAAG                         GCAGATATCTGGTCGTTAGGTATAACTGCTATTGAAATGGCAAAAGGTGAA
genomic: TTTGGATGGCACCTGAGGTTATTCAAAACTCTGACGGGTACAATGAAAAGgtagctgtgc ... cctgatgcagGCAGATATCTGGTCGTTAGGTATAACTGCTATTGAAATGGCAAAAGGTGAA
EST: gi|25799236|gb|CA755197.1|CA755197
EST:     TTTGGATGGCACCTGAGGTTATTCAAAACTCTGACGGGTACAATGAAAAG                         GCAGATATCTGGTCGTTAGGTATAACTGCTATTGAAATGGCAAAAGGTGAA
genomic: TTTGGATGGCACCTGAGGTTATTCAAAACTCTGACGGGTACAATGAAAAGgtagctgtgc ... cctgatgcagGCAGATATCTGGTCGTTAGGTATAACTGCTATTGAAATGGCAAAAGGTGAA
EST: gi|58665909|gb|CK054595.1|CK054595
EST:     TTTGGATGGCACCTGAGGTTATTCAAAACTCTGACGGGTACAATGAAAAG                         GCAGATATCTGGTCGTTAGGTATAACTGCTATTGAAATGGCAAAAGGTGAA
genomic: TTTGGATGGCACCTGAGGTTATTCAAAACTCTGACGGGTACAATGAAAAGgtagctgtgc ... cctgatgcagGCAGATATCTGGTCGTTAGGTATAACTGCTATTGAAATGGCAAAAGGTGAA
EST: gi|58669013|gb|CK057699.1|CK057699
EST:     TTTGGATGGCACCTGAGGTTATTCAAAACTCTGACGGGTACAATGAAAAG                         GCAGATATCTGGTCGTTAGGTATAACTGCTATTGAAATGGCAAAAGGTGAA
genomic: TTTGGATGGCACCTGAGGTTATTCAAAACTCTGACGGGTACAATGAAAAGgtagctgtgc ... cctgatgcagGCAGATATCTGGTCGTTAGGTATAACTGCTATTGAAATGGCAAAAGGTGAA