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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATAACTTCAACAGCTGGTGGTGGCACTTTGACACTGGAATTTGGTGTCCTGAGTCGTTTGACTAATGATAGCGgttagtattgacaatatattatattgttgaagatctctatatcatgtattctacattattacacaactacaatagctaccatgtgctagaaaggtgcccc...

Basic information

species Oryza sativa
transcript LOC_Os01g56670.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g56670.3 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G173868_T02 (Zea mays), 5'ss of exon 7
ATAACTTCAACAGCTGGTGGTGGCACTTTGACACTGGAATTTGGTGTCCTGAGTCGTTTGACTAATGATAGCGgttagtattgacaatatattatattgttgaagatctct---atatcatgtatt-ctacattattacacaactacaatagctaccatgtgctagaaaggtgcccc
||||| ||||| ||||||||||| ||||||||||||||||||||  |  ||||||| ||||||||| |||  ||| | | ||   ||||| |   |||||  || || |     || | |   ||  ||   || ||           ||    ||||  |  ||   ||| |    
ATAACATCAACGGCTGGTGGTGGTACTTTGACACTGGAATTTGGCATATTGAGTCGCTTGACTAATAATACTGgtaattctt---aatatgtgtaattgtgcaacattttctacatgtaaaccatgactgtctttttttttgtggtttatgttgaccagttaatatgcaggggata-

upper sequence: LOC_Os01g56670.3 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA10G32320.1 (Glycine max), 5'ss of exon 6
ATAACTTCAACAGCTGGTGGTGGCACTTTGACACTGGAATTTGGTGTCCTGAGTCGTTTGACTAATGATAGCGgttagtattgacaatata---ttatat-tgttgaagatctctat-at-catgtattctacattattacacaactacaatagctaccatgtgctagaaaggtgcccc
||||||||||||||||||||||| || ||||| || |||||||| || || || || ||||| ||||||    || ||| ||| || | |    |||  | | |||||    |  || || || | | || |  |||||      ||   | |      |||  ||| |    ||    
ATAACTTCAACAGCTGGTGGTGGGACCTTGACTCTTGAATTTGGAGTTCTAAGCCGATTGACAAATGATCCTAgtgagt-ttgccattttccctttaggtctattgaaagcatacattatgcaaggaatccaagttattgt----ctttgagaagatatatgaactaaagttttgaat-

upper sequence: LOC_Os01g56670.3 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv05s0020g04650.t01 (Vitis vinifera), 5'ss of exon 8
ATAACTTCAACAGCTGGTGGTGGCACTTTGACACTGGAATTTGGTGTCCTGAGTCGTTTGACTAATGATAGCGgttagtattgacaatatattatattgttgaagatctctatatcatgtattctacattattacac--aactacaatagctacc--atgtgctagaaaggtgcccc
|||||||||||||| |||||||| ||||||||  |||||||||| || || || || || |||||||||  | || ||| || |  ||   ||    ||| |      |  ||||||| | ||| || || ||  ||   | | ||    |||    || | ||   |   |  |||
ATAACTTCAACAGCAGGTGGTGGGACTTTGACCTTGGAATTTGGGGTGCTTAGCCGCTTAACTAATGATCCCAgtaagtgtttattatccttt---ctgtagggctagtacatatcattt-ttcaactttttttgactggaatccagcctctaattgattttcttttattttttccc

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|29678673|gb|CB674948.1|CB674948
EST:     CACTTTGACACTGGAATTTGGTGTCCTGAGTCGTTTGACTAATGATAGCG                         TTTATGAACGAGTTACAAAAAACTCTGTGCGTGGAATATGGGCA
genomic: CACTTTGACACTGGAATTTGGTGTCCTGAGTCGTTTGACTAATGATAGCGgttagtattg ... cacgatgcagTTTATGAACGAGTTACAAAAAACTCTGTGCGTGGAATATGGGCA