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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGGTCACTTGGTGCGATCATGTATGAAATGCTTGTGGGGTTTCCACCATTTTATTCAGACGAGCCAATGACAACTTGTAGAAAGgtaccaatcctcactttttgtggactttaactctgttctagacttctagtaatctcaaatttttgcattcgatttagttcttgatcttctaatgatacctctttggtaatatatgcacatctctgaatacttgttattgtttttaatgcag

Basic information

species Arabidopsis thaliana
transcript AT3G23310.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G23310.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: LOC_Os10g33640.1 (Oryza sativa), 5'ss of exon 7
GTGGTCACTTGGTGCGATCATGTATGAAATGCTTGTGGGGTTTCCACCATTTTATTCAGACGAGCCAATGACAACTTGTAGAAAGgtaccaatcctcactttttgtggactt-taactctgt-tctagacttctagtaatctcaaatttttgcattcgatttagttcttgatcttctaatgatacctctttggtaatatatg------cacatc-tctgaatacttgttattgtttttaatgcag---------------------
|||||||||||| || ||||||||||||||||| ||||| | ||| ||||| ||||| || ||||| ||||||||||| ||||||||   |      |  ||||   |||||  | || ||  | || | ||     |  ||||    ||| || |   |  |  | |   |  |||    | |||| ||   | || || |       | ||| | |   | | ||  ||| ||||||||  |                      
GTGGTCACTTGGAGCAATCATGTATGAAATGCTAGTGGGCTATCCCCCATTCTATTCTGATGAGCCTATGACAACTTGCAGAAAGgtgata-----tatatttttcagacttgcagctatgaatatataatttcttgaccctca----tttccactaattccacatttcagtagtctgtaaacaccttttccattatttaagaaaaaataaatcgtgtttgttcctgacattttttttaatttattgtgcccatatgggcacacag

upper sequence: AT3G23310.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G088245_T01 (Zea mays), 5'ss of exon 7
GTGGTCACTTGGTGCGATCATGTATGAAATGCTTGTGGGGTTTCCACCATTTTATTCAGACGAGCCAATGACAACTTGTAGAAAGgtaccaatcctcactttttgtggactttaactctgttctagacttctagtaatctcaaattt--ttgcattcgatttagttcttgatcttctaatg--atacctctttggtaatatatgcacatctctgaatacttgttattgttttta-atgcag--------
|||||| |||||| | ||||||||||| ||||| ||||| | ||| ||||| ||||| |||||||| ||||| |||||  |||||||| |||  || ||   || |   ||||  |         ||   ||   ||    |  ||   | |   |||  |   |   |    ||| | ||   | | || ||   |  ||     |  |      ||  ||  |        | |  ||         
GTGGTCCCTTGGTTCTATCATGTATGAGATGCTAGTGGGTTATCCTCCATTCTATTCTGACGAGCCTATGACTACTTGCCGAAAGgtaacaacact-acacgttttaagctttctccggtgatcggagcactg--aactctaggttcagtcgtcgtcgtctcgatcggtttcgttccagtgtcgtccttcatttagaccatgcatgctgcctcctgtatctgcaaacacacacacacacacacacacag

upper sequence: AT3G23310.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA02G00580.2 (Glycine max), 5'ss of exon 8
GTGGTCACTTGGTGCGATCATGTATGAAATGCTTGTGGGGTTTCCACCATTTTATTCAGACGAGCCAATGACAACTTGTAGAAAGgtaccaatcctcactttttgtggactttaactctgttctag-acttctagtaatctcaaatttttgcattcgattt---agttcttgatcttctaatgatacctctttggtaatatatgcacatctctgaatacttgttattgtttttaatgcag
|||||| ||||| || || |||||||||||||||||||||| |||||| ||||||||||| || ||||||   ||||||||||||||| || |    ||    |||  |  | || ||  ||| |   | ||  | | |   |    ||    | | || |    |   ||||   || | |||   ||                                                   
GTGGTCTCTTGGAGCTATAATGTATGAAATGCTTGTGGGGTATCCACCCTTTTATTCAGATGAACCAATGTTGACTTGTAGAAAGgtagca-tatggaccccctgttaa--tgaattcctttccaatgcatcatgcatttgtatgagttgaactacaatgtgtgggactttgag--tccattgaattctt--------------------------------------------------

upper sequence: AT3G23310.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA10G00830.1 (Glycine max), 5'ss of exon 7
GTGGTCACTTGGTGCGATCATGTATGAAATGCTTGTGGGGTTTCCACCATTTTATTCAGACGAGCCAATGACAACTTGTAGAAAGgtaccaatcctcactttttgtggactttaactctgttctagacttctagtaatctcaaatttttgcatt-cgatttagttcttgatcttctaatgatacctctttggtaatatatgcacatctctgaatacttgttattgtttttaatgcag
|||||| || || || || |||||||||||||||||||||| ||| || |||||||||||||| ||||||   ||||||||||||||| || |    ||    |||  | |  |   |||| | |  | ||  | | |   |    ||   ||| |  | |||  |||    | | | |||   ||                                                   
GTGGTCTCTAGGAGCTATAATGTATGAAATGCTTGTGGGGTATCCTCCCTTTTATTCAGACGAACCAATGTTGACTTGTAGAAAGgtaaca-tgtggaccccctgttaa-tggattcctgtccaatgcatcatgcatttgtatgagttgaaattacagtgtaggacttagagtcc-attgaattctgc-------------------------------------------------

upper sequence: AT3G23310.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA20G35110.1 (Glycine max), 5'ss of exon 7
GTGGTCACTTGGTGCGATCATGTATGAAATGCTTGTGGGGTTTCCACCATTTTATTCAGACGAGCCAATGACAACTTGTAGAAAGgtaccaatcctcactttttgtggactttaactctgttctagacttctagtaatctcaaatttttgcattcgatttagttcttgatcttctaatgatacctctttggtaatatatgcacatctctgaatacttgttattgtttttaatgcag
|||||| || || ||||| |||||||||||| | ||||||| ||| || ||||||||||| || ||||||   |||||||||||||||    ||   |     ||| |||    |   ||   |  |  |    |||  | |  |||   ||  |   |  | | ||||  |   | |||    |  | || |                                           
GTGGTCCCTGGGAGCGATAATGTATGAAATGTTAGTGGGGTATCCGCCCTTTTATTCAGATGAACCAATGTTGACTTGTAGAAAGgtaatg-tctggatcaactgtcgac----aaattgggatgaatattgtataaatttaggttt---cacacatgtaggatgttgacttc--actgaattttggtgggcacc-----------------------------------------

upper sequence: AT3G23310.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA10G32480.1 (Glycine max), 5'ss of exon 7
GTGGTCACTTGGTGCGATCATGTATGAAATGCTTGTGGGGTTTCCACCATTTTATTCAGACGAGCCAATGACAACTTGTAGAAAGgtaccaatcc--tcactttttgtggactttaactctgttctagacttctagtaatctcaaatttttgcattcgatttagttc-ttgatcttctaatgatacctctttggtaatatatgcacatctctgaatacttgttattgtttttaatgcag
||||||  | || ||||| |||||||||||| | ||||||| ||| || ||||||||||| || ||||||   |||||||||||||||         |||  | |||  || ||    |   |  |  |    | |   | | | |  | |    |   || | | | ||||  ||     |  |||                                                    
GTGGTCCTTGGGAGCGATAATGTATGAAATGTTAGTGGGGTATCCGCCCTTTTATTCAGATGAACCAATGTTGACTTGTAGAAAGgtaatgtctggatcaactgttgatgaattgggatgaatattgtatagattgaggtttgacacatgtaggat--gttgactacattgaattttggtaggcacc----------------------------------------------------

upper sequence: AT3G23310.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv05s0049g01220.t01 (Vitis vinifera), 5'ss of exon 7
GTGGTCACTTGGTGCGATCATGTATGAAATGCTTGTGGGGTTTCCACCATTTTATTCAGACGAGCCAATGACAACTTGTAGAAAGgtaccaatcctcactttttgtggactttaactctgttctagacttctagtaatctcaaatttttgcattcgatttagttcttgatcttctaatgatacctctttggtaatatatgcacatctctgaatacttgttattgtttttaatgcag
|||||| |||||||| |||||||| |||||||||||||| | |||||| ||||||||||| || || |||||||||||||| ||||||           || ||| | |   | |   ||    | |  | | ||      |||| |||  |  | |||       |||  || |||  || | | | |  |   | ||||  |                                
GTGGTCTCTTGGTGCTATCATGTACGAAATGCTTGTGGGATATCCACCTTTTTATTCAGATGAACCTATGACAACTTGTAGGAAGgtag----------ttcttg-gaatgctgatcttg----aaagatgttgtctgtgtaaatgtttcta--caattgcaccaatgagtttgtaa-aatgcttatctcctt-cacatgctaa--------------------------------

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|124718988|gb|EH810390.1|EH810390
EST:     TGGGGTTTCCACCATTTTATTCAGACGAGCCAATGACAACTTGTAGAAAG                         ATAGTAAATTGGAAAAATTATTTAAAATTCCCTGATGAGGTTAGG
genomic: TGGGGTTTCCACCATTTTATTCAGACGAGCCAATGACAACTTGTAGAAAGgtaccaatcc ... tttaatgcagATAGTAAATTGGAAAAATTATTTAAAATTCCCTGATGAGGTTAGG