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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGATAGACTCTTCCACAACAAAATCTACAATCGCTACGTCAAACGAACTTCCAAATTCATGGCTCACGACGACAAAGACGCCTGCAACATCGGCGATCGAgtaaattctctcgcatttccttcttccctttcactctaatttcgtttgattccgtcttttaaatctgagccacttgaattaggctttgtgattgaacctctgaggctaagaaatttgaaaatctggttgatgtgtag

Basic information

species Arabidopsis thaliana
transcript AT1G49400.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G49400.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: LOC_Os08g27090.1 (Oryza sativa), 5'ss of exon 1
CGATAGACTCTTCCACAACAAAATCTACAATCGCTACGTCAAACGAACTTCCAAATTCATGGCTCACGACGACAAAGACGCCTGCAACATCGGCGATCGAgtaaattctctcgcatttccttc--ttccctttcactctaatttcgtttgattccgtcttttaaatctgagccacttgaattaggctttgtg-attgaacctctgaggctaagaaatttgaaaatctggttgatgtgtag
|||  | ||||||||| |||| || ||||| ||||||||||| || || ||||| |||||||| ||||| || |  || | ||| ||||||||||| || ||   |   |  ||    |  ||   ||||  || ||||  ||  | ||  |||  | |||| ||||   ||    ||| ||  | |  | | |||  |  |||                                    
CGACCGCCTCTTCCACCACAAGATGTACAACCGCTACGTCAAGCGCACCTCCAAGTTCATGGCGCACGATGAGACCGAGGACTGTAACATCGGCGACCGGgtcggtaaccgagctcccctctccactccccctctctctgtttcagcttttttctttttttttaatccatgc----tgatttgtgatgcgagcatttgatttct------------------------------------

upper sequence: AT1G49400.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GRMZM2G177654_T01 (Zea mays), 5'ss of exon 1
CGATAGACTCTTCCACAACAAAATCTACAATCGCTACGTCAAACGAACTTCCAAATTCATGGCTCACGACGACAAAGACGCCTGCAACATCGGCGATCGAgtaaattctctcgcatttccttcttccctttcactctaatttcgtttgattccgtcttttaaatctgagccacttgaattaggctttgtgattgaacctctgaggctaagaaatttgaaaatctggttgatgtgtag
 ||  | ||||||||||||||  | ||||| ||||||||||| || || ||||| |||||||| ||||||||  | ||| |||||||||| ||||| || ||     || |     || || ||||  ||   ||| |           ||| |  |||  ||     ||      ||||||   |  | | |    || | || ||                              
GGACCGTCTCTTCCACAACAAGGTATACAACCGCTACGTCAAGCGCACCTCCAAGTTCATGGCACACGACGATGACGACTCCTGCAACATTGGCGACCGGgt-----ctgtaattcttgctccttcgattcgtctccaccccttccccgttctgattttgtaa----ggctgtggaaattagcgatgctaact---tctgtaagactggtgt-------------------------

upper sequence: AT1G49400.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv09s0070g00100.t01 (Vitis vinifera), 5'ss of exon 2
CGATAGACTCTTCCACAACAAAATCTACAATCGCTACGTCAAACGAACTTCCAAATTCATGGCTCACGACGACAAAGACGCCTGCAACATCGGCGATCGAgtaaattctctc-gcatttccttcttccctttcactctaatttcgtttgattccgtcttttaaatctgagccacttgaattaggctttgtgattgaacctctgaggctaagaaatttgaaaatctggttgatgtgtag
 ||  | ||||||||||||||  ||| ||| ||||| |||||||||||   ||| ||||||||||| |||||  |  ||  ||||||||| || || ||||| | || |    ||| |   ||| | ||||||  || | || |||||  || | |  |  | |    | |   |  ||  |  |  ||| |||  |                                         
GGACCGTCTCTTCCACAACAAGCTCTTCAACCGCTATGTCAAACGAACCAGCAAGTTCATGGCTCATGACGAACACAACCTCTGCAACATTGGTGACCGAgtcagttgttaaagcaatgggttccttcctttc--tccacttccgttt--tttcataatggataaaataacttgtgaaacaacac--tgtcattccag----------------------------------------

upper sequence: AT1G49400.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv09s0070g00270.t01 (Vitis vinifera), 5'ss of exon 1
CGATAGACTCTTCCACAACAAAATCTACAATCGCTACGTCAAACGAACTTCCAAATTCATGGCTCACGACGACAAAGACGCCTGCAACATCGGCGATCGAgtaaattctctc-gcatttccttcttccctttcactctaatttcgtttgattccgtcttttaaatctgagccacttgaattaggctttgtgattgaacctctgaggctaagaaatttgaaaatctggttgatgtgtag
 ||  | ||||||||||||||  ||| ||| ||||| |||||||||||   ||| ||||||||||| |||||  |  ||  ||||||||| || || ||||| | || |    ||| |   ||| | ||||||  || | ||  | ||  || | |  |  | |    | |   |  ||  |  | || | |||  |                                         
GGACCGTCTCTTCCACAACAAGCTCTTCAACCGCTATGTCAAACGAACCAGCAAGTTCATGGCTCATGACGAACACAACCTCTGCAACATTGGTGACCGAgtcagttgttaaagcaatcggttccttcctttc--tccacttctgctt--tttcataatggataaaataacttgtgaaacaa--cattatcattccag----------------------------------------

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|164154330|gb|ES010597.1|ES010597
EST:     CGACAAAGACGCCTGCAACATTGGCGATCGA                         GTGAAGTTAGATCCATCAAGGCCTTTGAGCAAGAATAAGCATTGGATTGTT
genomic: CGACAAAGACGCCTGCAACATCGGCGATCGAgtaaattctc ... tgatgtgtagGTGAAGTTAGATCCATCAAGGCCTTTGAGCAAGAATAAGCATTGGATTGTT
EST: gi|164234711|gb|ES022354.1|ES022354
EST:     CCAAATTCATGGCTCACGACGACAAAGACGCCTGCAACATCGGCGATCGA                         GTGAAGTTAGATCCATCAAG
genomic: CCAAATTCATGGCTCACGACGACAAAGACGCCTGCAACATCGGCGATCGAgtaaattctc ... tgatgtgtagGTGAAGTTAGATCCATCAAG