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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGGTGGAGCACTTTTTCCAGTCGTTGGTGAATACTTCTGGTATGACTCTTCACATCCGGCAGgtactttgtgattcaaatcttccaaaagctaacaaaatcatgcagtttcatgagtttcttctatcctctgtctgtggaccatttcataacagttttaatatttgtttgttacaacag

Basic information

species Arabidopsis thaliana
transcript AT3G22425.2
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G22425.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os04g52710.2 (Oryza sativa), 5'ss of exon 6
TTGGTGGAGCACTTTTTCCAGTCGTTGGTGAATACTTCTGGTATGACTCTTCACATCCGGCAGgtactttgtgattcaaatctt-ccaaaagctaacaaaatcatgca-----gtttcatgagt-ttcttctatcctctgt---ctgtggacc--atttcataacagttttaatatttgtttgttacaacag
 | || |||||||||||||| ||  | |||||||| ||||| ||||| ||||||||||| ||||||| |  || ||    ||    ||||     |   | |  || |      || || ||||  | ||     ||   |    ||    ||   ||  | |  ||  | ||| |||| || || |  |||
CTAGTTGAGCACTTTTTCCAATCTCTTGTGAATACATCTGGGATGACACTTCACATCCGTCAGgtacatattgctttgcttcagatcaaatttccatccagtgttggatcattattacaagagtgctgtttggcactgaataaattgcatccctagttgaacataagagtcaatctttgctt-ttcctccag

upper sequence: AT3G22425.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os04g52710.3 (Oryza sativa), 5'ss of exon 6
-------------------------------------TTGGTGGAGCACTTTTTCCAGTCGTTGGTGAATACTTCTGGTATGACTCTTCACATCCGGCAGgtactttgtgattcaaatctt-ccaaaagctaacaaaatcatgca-----gtttcatgagt-ttcttctatcctctgt---ctgtggacc--atttcataacagttttaatatttgtttgttacaacag--------------------------------------------------------------
                                      | || |||||||||||||| ||  | |||||||| ||||| ||||| ||||||||||| ||||||| |  || ||    ||    ||||     |   | |  || |      || || ||||  | ||     ||   |    ||    ||   ||  | |  ||  | ||| |||| || || |  |||                                                              
CTTAGACAGCTATTGATTTATTCACTTTGATGACCAGCTAGTTGAGCACTTTTTCCAATCTCTTGTGAATACATCTGGGATGACACTTCACATCCGTCAGgtacatattgctttgcttcagatcaaatttccatccagtgttggatcattattacaagagtgctgtttggcactgaataaattgcatccctagttgaacataagagtcaatctttgctt-ttcctccagttaagcgagctaagaagtacgtatatcatacctgagcctgccttttctttgctcttatgaag

upper sequence: AT3G22425.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os04g52710.1 (Oryza sativa), 5'ss of exon 6
TTGGTGGAGCACTTTTTCCAGTCGTTGGTGAATACTTCTGGTATGACTCTTCACATCCGGCAGgtactttgtgattcaaatctt-ccaaaagctaacaaaatcatgca-----gtttcatgagt-ttcttctatcctctgt---ctgtggacc--atttcataacagttttaatatttgtttgttacaacag--------------------------------------------------------------
 | || |||||||||||||| ||  | |||||||| ||||| ||||| ||||||||||| ||||||| |  || ||    ||    ||||     |   | |  || |      || || ||||  | ||     ||   |    ||    ||   ||  | |  ||  | ||| |||| || || |  |||                                                              
CTAGTTGAGCACTTTTTCCAATCTCTTGTGAATACATCTGGGATGACACTTCACATCCGTCAGgtacatattgctttgcttcagatcaaatttccatccagtgttggatcattattacaagagtgctgtttggcactgaataaattgcatccctagttgaacataagagtcaatctttgctt-ttcctccagttaagcgagctaagaagtacgtatatcatacctgagcctgccttttctttgctcttatgaag

upper sequence: AT3G22425.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G094255_T02 (Zea mays), 5'ss of exon 5
-------------------------------------TTGGTGGAGCACTTTTTCCAGTCGTTGGTGAATACTTCTGGTATGACTCTTCACATCCGGCAGgtactttgtgat-----------tcaaatcttccaaaagctaacaaaatc----atgcagttt----catgagtttctt--------ctatcctctgtctgtggaccatttcataacagttt--taatatttgtttgttacaacag------------------------------------------------------
                                      |||| |||||||| ||||| ||  ||||||| || ||||| ||||||||||||||||| ||||||| |  || |           ||||||  |||  ||   | |   |||    || || |||    || | |  | ||         |||   ||| ||| | |  |   ||  |  |||   |  | | | ||| ||| | |                                                        
CTTACAGAAAAGTTTCATTTATTCGTTTTGGTCCCAGCTGGTTGAGCACTTCTTCCAATCTGTGGTGAACACATCTGGGATGACTCTTCACATCCGTCAGgtacatattgctgtccgctcaaatcaaattctcctcaaaacagctggatcagtgatacaattttagtcacgggcattttgtagaatcatattgactggctgagcataaggccaagatggttgagttttctctattttttatagcgaatttgcatgaccccgtccctatcacctgatctcgctccatactgtcttttgaag

upper sequence: AT3G22425.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G094255_T01 (Zea mays), 5'ss of exon 6
TTGGTGGAGCACTTTTTCCAGTCGTTGGTGAATACTTCTGGTATGACTCTTCACATCCGGCAGgtactttgtgat-----------tcaaatcttccaaaagctaacaaaatca----tgcagttt----catgagtttcttcta--------tcctctgtctgtggaccatttcataacagtt--ttaatatttgtttgttacaacag------------------------------------------------------
 |||| |||||||| ||||| ||  ||||||| || ||||| ||||||||||||||||| ||||||| |  || |           ||||||  |||  ||   | |   ||||    | || |||    || | |  | || ||        |   ||| ||| | |  |   ||  |  |||   |  | | | ||| ||| | |                                                        
CTGGTTGAGCACTTCTTCCAATCTGTGGTGAACACATCTGGGATGACTCTTCACATCCGTCAGgtacatattgctgtccgctcaaatcaaattctcctcaaaacagctggatcagtgatacaattttagtcacgggcattttgtagaatcatattgactggctgagcataaggccaagatggttgagttttctctattttttatagcgaatttgcatgaccccgtccctatcacctgatctcgctccatactgtcttttgaag

upper sequence: AT3G22425.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA20G28420.2 (Glycine max), 5'ss of exon 6
TTGGTGGAGCACTTTTTCCAGTCGTTGGTGAATACTTCTGGTATGACTCTTCACATCCGGCAGgtactttgtgattcaaatcttccaaaagctaacaaaatcatgcagtttcatgagtttcttctatcctctgtctgtggaccatttcataacagttttaatatttgtttgttacaacag
||||||||||| || ||||| ||  ||||||| || ||||||||||| |||||||| | |||||||  ||   |   | | |||| | || |    | | ||||  | |||  | | | | |||   | | |   | || |  |   ||||     |    ||  |||            
TTGGTGGAGCATTTCTTCCAATCCCTGGTGAACACGTCTGGTATGACACTTCACATTCAGCAGgta--ttaatacatagaacttc-ataatcagttatagtcattaaattt-gtaaatatattcatgcatatcattatgaaagaaa-catactgaatgctgtagatgt------------

upper sequence: AT3G22425.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv05s0020g03430.t01 (Vitis vinifera), 5'ss of exon 6
TTGGTGGAGCACTTTTTCCAGTCGTTGGTGAATACTTCTGGTATGACTCTTCACATCCGGCAGgtactttgtgattcaaatcttccaaaagctaacaaaatcatgcagtttcatgagtttcttctatcctctgtctgtggaccatttcataacagttttaatatttgtttgttacaacag
||||||||||||||||||||||| |||||||||||||| || ||||| |||||||| || ||||||   ||      | |  |||| ||   | |    | ||   |||  |      | |   ||| || |||   |  |  |    |  |||  |  | |   || |  |        
TTGGTGGAGCACTTTTTCCAGTCTTTGGTGAATACTTCAGGCATGACACTTCACATTCGACAGgtataatg------agagtttcctaacatttattgtagcaaatagtaactc---ctccaaatattct-tgttaatttagaaagaaaacacatctccattcaatggtcttc-------

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|164027385|gb|ES139076.1|ES139076
EST:     CTGGTATGACTCTTCACATCCGGCAG                         CTCGCTGGTGAAAACTCTCATCACATAATAGAGGCGACGTTTAAGGCGTTT
genomic: CTGGTATGACTCTTCACATCCGGCAGgtactttgtg ... gttacaacagCTCGCTGGTGAAAACTCTCATCACATAATAGAGGCGACGTTTAAGGCGTTT
EST: gi|164088258|gb|ES132431.1|ES132431
EST:     TTTTCCAGTCGTTGGTGAATACTTCTGGTATGACTCTTCACATCCGGCAG                         CTCGCTGGTGAAAACTCTCATCACATAATAGAGGCG
genomic: TTTTCCAGTCGTTGGTGAATACTTCTGGTATGACTCTTCACATCCGGCAGgtactttgtg ... gttacaacagCTCGCTGGTGAAAACTCTCATCACATAATAGAGGCG
EST: gi|164149898|gb|ES137392.1|ES137392
EST:     TTTTCCAGTCGTTGGTGAATACTTCTGGTATGACTCTTCACATCCGGCAG                         CTCGCTGGTGAAA-CTCTCATCACATAATAGAGGCG
genomic: TTTTCCAGTCGTTGGTGAATACTTCTGGTATGACTCTTCACATCCGGCAGgtactttgtg ... gttacaacagCTCGCTGGTGAAAACTCTCATCACATAATAGAGGCG
EST: gi|86080767|gb|DR376524.1|DR376524
EST:     TTTTCCAGTCATTGGTGAATACTTCTGGTATGACTCTTCACATCCGGCAG                         CTCGCTGGTGAAAACTCTCATCACATAATAGAGGCGACGTTTAAGGCGTTT
genomic: TTTTCCAGTCGTTGGTGAATACTTCTGGTATGACTCTTCACATCCGGCAGgtactttgtg ... gttacaacagCTCGCTGGTGAAAACTCTCATCACATAATAGAGGCGACGTTTAAGGCGTTT