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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGAGGGAAATTTAAAGCTAGCGGATTTTGGGCTTGCTCGGTCATATTCTCATGATCATACTGGAAACCTCACAAATCGTGTCATCACTTTGTGGTATAGgtatgtatgcctacaaactttgaagttatatacaaaaaagtgacaaagaataagtattgcttatacgtgcagctttttctctacttatgcattgtttattgctgtag

Basic information

species Arabidopsis thaliana
transcript AT5G64960.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G64960.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os05g32360.1 (Oryza sativa), 5'ss of exon 7
ATGAGGGAAATTTAAAGCTAGCGGATTTTGGGCTTGCTCGGTCATATTCTCATGATCATACTGGAAACCTCACAAATCGTGTCATCACTTTGTGGTATAGgtat-gtatgcctacaaactttgaagttatatacaaaaaagtgacaaagaataagtattgcttatacgtgcagctttttctctacttatgcattgtttattgctgtag
|||| || || || ||||| || |||||||| || ||  | |||| |||  |||||||||  ||||| ||||| |||||||| |||||||||||||| |||||| | |    ||  ||||| |   ||  ||     | | ||    |   ||  ||  | || | | || | | |  |  | | ||    ||  |||   |      
ATGAAGGTAACTTGAAGCTGGCTGATTTTGGCCTAGCAAGATCATTTTCAAATGATCATAACGGAAATCTCACTAATCGTGTGATCACTTTGTGGTACAGgtattgcagaattatgaactt-gccattgaattttgcatattgtgttatggtattta--gtttttgcttggatcatgctgaccatttgccaatgattttcag------

upper sequence: AT5G64960.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os01g72790.1 (Oryza sativa), 5'ss of exon 7
ATGAGGGAAATTTAAAGCTAGCGGATTTTGGGCTTGCTCGGTCATATTCTCATGATCATACTGGAAACCTCACAAATCGTGTCATCACTTTGTGGTATAGgtatgtatgcctacaaactttgaagttatatacaaaaaagtgacaaagaataagtattgcttatacgtgcagctttttctctacttatgcattgtttattgctgtag
||||||| || || ||||| || |||||||| |||||  | ||||  ||   ||| || | ||||||| | ||||| ||||| |||||||||||||||||||||| |  | | | |  |  | || |   | ||   |  |  |    | |   | ||  || | |   |    | || | |   ||||||                
ATGAGGGTAACTTGAAGCTTGCTGATTTTGGCCTTGCAAGATCATTCTCAAGTGACCACAATGGAAACTTAACAAACCGTGTGATCACTTTGTGGTATAGgtatggaaacttccca--tgaggaggttcttccattcatatttctcttactttcttttcattgttctctc--tctcttatttgtgtatgcag---------------

upper sequence: AT5G64960.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G028452_T02 (Zea mays), 5'ss of exon 6
------ATGAGGGAAATTTAAAGCTAGCGGATTTTGGGCTTGCTCGGTCATATTCTCATGATCATACTGGAAACCTCACAAATCGTGTCATCACTTTGTGGTATAGgtat---gtatgcctacaaactttgaagttatatacaaaaaagtgacaaagaataagtattgcttatacgtgcagctttttctctacttatgcattgtttattgctgtag
      | ||||| || |||||||| || |||||||| |||||  | ||||  ||    ||||| | ||||||||| || || ||||| |||||||||||||||||||||    |||    ||    | ||   | || |  | |                                                                       
TAGATAACGAGGGTAACTTAAAGCTTGCTGATTTTGGCCTTGCAAGATCATTCTCCAGCGATCACAATGGAAACCTTACCAACCGTGTGATCACTTTGTGgtataggtattgtctattttcactggttctgttatcatgtttacag----------------------------------------------------------------------

upper sequence: AT5G64960.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv07s0141g00280.t01 (Vitis vinifera), 5'ss of exon 7
ATGAGGGAAATTTAAAGCTAGCGGATTTTGGGCTTGCTCGGTCATATTCTCATGATCATACTGGAAACCTCACAAATCGTGTCATCACTTTGTGGTATAGgtatg---------tatgcctacaaactttgaagttatatacaaaaaagtgacaaagaataagtattgctta----tacgtgcagctttttctctactt-atgcattgtt-tattgctgtag----
||||||||| ||||||||| || |||||||| ||||| ||||||| |||   ||| |||| |||||| || ||||||||||| || |||||||||||||||||           ||  |  |     ||| || |      |  ||  ||     |   |   | ||    |    || |  | ||||||  | || || || ||   || ||||| | |      
ATGAGGGAATTTTAAAGCTTGCTGATTTTGGACTTGCACGGTCATTTTCCAGTGACCATAATGGAAATCTTACAAATCGTGTTATTACTTTGTGGTATAGgtaaaatattacattaacctcatgtgttttaaactgcctagctcaattgttgtgcatgttgcatcttttccaagaataagctccgcttttcatttagttgattcaggtttatattgatttgcatag

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|125291641|gb|EL305726.1|EL305726
EST:     TCACTTTGTGGTATAG                         G-CCCCTGAATTGTTACTTGGTGCAACTAAATATGGACCAGCGATTGACAT
genomic: TCACTTTGTGGTATAGgtatgtatgc ... attgctgtagGCCCCCTGAATTGTTACTTGGTGCAACTAAATATGGACCAGCGATTGACAT
EST: gi|86059280|gb|DR355037.1|DR355037
EST:     CATGATCATACTGGAAACCTCACAAATCGTGTCATCACTTTGTGGTATAG                         GCCCCCTGAATTGTTACTTGGTGCAACTAAATATGGACCAGCGATTGACAT
genomic: CATGATCATACTGGAAACCTCACAAATCGTGTCATCACTTTGTGGTATAGgtatgtatgc ... attgctgtagGCCCCCTGAATTGTTACTTGGTGCAACTAAATATGGACCAGCGATTGACAT
EST: gi|86059279|gb|DR355036.1|DR355036
EST:     CATGATCATACTGGAAACCTCACAAATCGTGTCATCACTTTGTGGTATAG                         GCCCCCTGAATTGTTACTTGGTGCAACTAAATATGGACCAGCGATTGACAT
genomic: CATGATCATACTGGAAACCTCACAAATCGTGTCATCACTTTGTGGTATAGgtatgtatgc ... attgctgtagGCCCCCTGAATTGTTACTTGGTGCAACTAAATATGGACCAGCGATTGACAT