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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAACCGGTGATCCCAGGATGCTTTCTTCGGGCCAAAGCTATTGGTCTGATGCCAATGATTGATCAGgttagatattcaacgtacttgtcatattagtacttataaaagtaacagagattgaaactagaagctctttctgcttgaatag

Basic information

species Arabidopsis thaliana
transcript AT3G53620.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G53620.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA13G19500.2 (Glycine max), 5'ss of exon 6
GAACCGGTGATCCCAGGATGCTTTCTTCGGGCCAAAGCTATTGGTCTGATGCCAATGATTGATCAGgt----tagatattcaacgtacttgtcatattagtacttataaaagtaacagagattgaaactagaagctctttctgcttgaatag----------------------------------------------------------------------------
|| || ||  | || || ||||||||||||||||||||||||||||| ||||| ||||||||||||||    |||| ||||    |       |    ||  | | |     |  |      |    ||     |||| |||   |  |||                                                                             
GAGCCAGTTCTTCCGGGTTGCTTTCTTCGGGCCAAAGCTATTGGTCTCATGCCTATGATTGATCAGgtatattagacattccctttttccacaaagcaagagcctctctctctctctctctctctctctctct-ctctctctatatatatatatatatatatatatatatatatatatttagcagttcttttgattattgatctaccattaattgtgatcaaattcag

upper sequence: AT3G53620.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA03G33000.6 (Glycine max), 5'ss of exon 8
GAACCGGTGATCCCAGGATGCTTTCTTCGGGCCAAAGCTATTGGTCTGATGCCAATGATTGATCAGgt----tagatattcaacgtacttgtcatat-----tagtacttataaaagtaacagagattgaaactagaagctctttctgcttgaatag--
|| |||||  | ||||| |||||||||||||||||||| |||||||| ||||| ||||||||||||||    || | | ||     | ||  || |       |   | | |     |     | ||||||  ||    ||  ||  |||   |||   
GAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATGCCCATGATTGATCAGgtaaattaaacactcccaccatttcccacacggcaagaactcctcttttgatgttgaatattgaa--taaccacttattgcgctgatataaag

upper sequence: AT3G53620.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA19G35710.2 (Glycine max), 5'ss of exon 8
GAACCGGTGATCCCAGGATGCTTTCTTCGGGCCAAAGCTATTGGTCTGATGCCAATGATTGATCAGgt----tagatattcaacgtacttgtcatattagtacttata---aaagtaacagagattgaaactagaagctctttctgcttgaatag--
|| |||||  | ||||| |||||||||||||||||||| |||||||| ||||| ||||||||||||||    || |   ||    | |  |  |    || |||  |      | ||    | | ||||  ||    ||  || ||||    ||   
GAGCCGGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCAATTGGTCTCATGCCCATGATTGATCAGgtaaattaaaccctctcatttcccgcaaggcaagaactcctcttttgattattgaatactgaa--taaccactaattgtgctgatgtaaag

upper sequence: AT3G53620.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA10G05130.1 (Glycine max), 5'ss of exon 6
GAACCGGTGATCCCAGGATGCTTTCTTCGGGCCAAAGCTATTGGTCTGATGCCAATGATTGATCAGgt----tagatattc-----------aacgta-----cttgtcatattagtacttataaaagtaacagagattga-aactagaagctctttctgcttgaatag--
|| || ||  | ||||| |||||||| ||||||||||||||||| || ||||| ||||||||||||||    |||||||||           || | |     ||     | ||  |   | ||  |||      ||||    |  |     |  || || |  |||    
GAGCCAGTTCTTCCAGGTTGCTTTCTACGGGCCAAAGCTATTGGACTCATGCCTATGATTGATCAGgtatgttagatattccctttttccacaaagcaagagcctctctctctttttctctctagcagttcttttgattattgatcaaccattaattgtgatgaaattcag

upper sequence: AT3G53620.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv08s0040g02470.t01 (Vitis vinifera), 5'ss of exon 6
GAACCGGTGATCCCAGGATGCTTTCTTCGGGCCAAAGCTATTGGTCTGATGCCAATGATTGATCAGgttagatattcaacgtacttgtcatattagtacttataaaagtaacagagattgaaactagaagctctttctgcttgaatag
||||| ||  | |||||||||||||| ||||| |||||||||||||| ||||| ||||||||||||||   | |   |    ||  |  |||||    ||   ||      |  |   |  || ||         |    |   | ||
GAACCAGTTCTTCCAGGATGCTTTCTCCGGGCTAAAGCTATTGGTCTCATGCCTATGATTGATCAGgtagaaaa---agatgacaagatatatttcctctcccaattacttctaaaccttgaattaatcttgaccttgattaacacag

upper sequence: AT3G53620.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: EFJ33440 (Selaginella moellendorffii), 5'ss of exon 5
GAACCGGTGATCCCAGGATGCTTTCTTCGGGCCAAAGCTATTGGTCTGATGCCAATGATTGATCAGgttagatattcaacgtacttgtcatattagtacttataaaagtaacagagattgaaactagaagctctttctgcttgaatag
|| || ||| | || ||||||||||| || || | ||| ||||| |||||||| ||||||||||||||   | | ||| | | ||  |  | | | | | |||  |||    |  | | ||       ||                  
GAGCCTGTGTTGCCTGGATGCTTTCTGCGAGCGAGAGCGATTGGACTGATGCCGATGATTGATCAGgt--aacaatcatcttgctc-ttgtctgaatgcatatggaagattaattggtggactgctccag------------------

upper sequence: AT3G53620.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: EFJ27219 (Selaginella moellendorffii), 5'ss of exon 5
GAACCGGTGATCCCAGGATGCTTTCTTCGGGCCAAAGCTATTGGTCTGATGCCAATGATTGATCAGgttagatattcaacgtacttgtcatattagtacttataaaagtaacagagattgaaactagaagctctttctgcttgaatag
|| || ||| | || ||||||||||| || || | ||| ||||| |||||||| ||||||||||||||   | | ||| | | ||  |  | | | | | |||  |||    |  | | ||       ||                  
GAGCCTGTGTTGCCTGGATGCTTTCTGCGAGCGAGAGCGATTGGACTGATGCCGATGATTGATCAGgt--aacaatcatcttgctc-ttgtctgaatgcatatggaagattaattggtggaccgctccag------------------

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|125278488|gb|EL292573.1|EL292573
EST:     CCAAAGCTATTGGTCTGATGCCAATGATTGATCAG                         GGTGAGAAAGACGACAAGATCATTGCTGTCTGCGCTGACGATCCAGAGTAT
genomic: CCAAAGCTATTGGTCTGATGCCAATGATTGATCAGgttagatatt ... gcttgaatagGGTGAGAAAGACGACAAGATCATTGCTGTCTGCGCTGACGATCCAGAGTAT