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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTACCAGCCAGGAGACTAACCTTGTGGCTAGATGCCGAAGAGTGTATGCCCATGCTCATGATTACCATATTAATTCAATCTCCAATAGCAGgtaatcgttttcctaagttttccctcaggttatatgttttactcttgatatctctttaacacgtttttgctgtctttctccttaatttttccatctcagg...

Basic information

species Arabidopsis thaliana
transcript AT1G17720.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G17720.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os06g36770.1 (Oryza sativa), 5'ss of exon 6
GTTACCAGCCAGGAGACTAACCTTGTGGCTAGATGCCGAAGAGTGTATGCCCATGCTCATGATTACCATATTAATTCAATCTCCAATAGCAGgtaatcgttttc-ctaagttttccctcaggttat-atgttttactcttgatatctctttaacacgtttttgctgtctttctccttaatttttccatctcagg
||| | || || ||    |||||||| |||||||| ||| | || ||||| ||||||||||||||||||||||| || || || |  |  ||||||   |  ||  |   ||     | |   ||| | | | ||  | | ||   | |||    | |   | |  ||| | ||  |  | ||| ||| |    
GTTGCAAGTCAAGATGTGAACCTTGTTGCTAGATGTCGACGTGTATATGCACATGCTCATGATTACCATATTAACTCTATATCAACCAATAGgtaagtatgatcattgcattgaatattaatctattaagctgtatccctaatgcattttttctccatgagttc-atctgtatctatt-tcttttcatgttgaa

upper sequence: AT1G17720.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os02g13110.2 (Oryza sativa), 5'ss of exon 6
GTTACCAGCCAGGAGACTAACCTTGTGGCTAGATGCCGAAGAGTGTATGCCCATGCTCATGATTACCATATTAATTCAATCTCCAATAGCAGgt-aatcgttttcctaagttttc---cctcaggttatatgttttactcttgatatctctttaacacgtttttgctgtctttctccttaatttttccatctcagg
|| ||  |||| ||    ||||||||  | ||||||||  | || ||| | |||||||||||||||||||||||||| || || ||||  |||| |      ||||| |  ||       || | | |    | | | | |  |  | |  ||       | ||| | | ||    |  || | || ||  |    
GTCACTGGCCAAGATTTGAACCTTGTACCAAGATGCCGGCGTGTATATTCACATGCTCATGATTACCATATTAATTCCATTTCAAATAATAGgttagctaccttcctgatattatggatatctgatcaggcttgtaattttgtaattttgattcttgttctgttgttttattggctccaaactgttacacat----

upper sequence: AT1G17720.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G164185_T02 (Zea mays), 5'ss of exon 6
GTTACCAGCCAGGAGACTAACCTTGTGGCTAGATGCCGAAGAGTGTATGCCCATGCTCATGATTACCATATTAATTCAATCTCCAATAGCAGgtaatcgttttcctaagttttccctcaggttatatgttttactcttgatatctctt-taacacgtttttgctgtctttctccttaatttttccatctcagg--
||||| ||||| || || |  ||||   | || ||||||||||| ||||| ||||| ||||| |||||||| ||||| || || |||| |||||   | |   | ||  ||       | ||   ||   | ||  |  |  | |      ||    ||| | | |     |  ||| || |    | |  |   
GTTACAAGCCAAGAAACAAGTCTTGCCACAAGTTGCCGAAGAGTATATGCTCATGCACATGACTACCATATAAATTCGATATCAAATAACAGgt---cctgcacatatattcatttgaatgtatcatagctaacgttcaaggttttcagctactgaatttggatatggaaatttttagttctaaattttttgctt

upper sequence: AT1G17720.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G142334_T02 (Zea mays), 5'ss of exon 6
GTTACCAGCCAGGAGACTAACCTTGTGGCTAGATGCCGAAGAGTGTATGCCCATGCTCATGATTACCATATTAATTCAATCTCCAATAGCAGgtaatcgttttcctaagttttccctcaggttatatgttttactcttgatatctctttaac--acgtttttgctgtctttctccttaatttttccatctcagg
||||| | ||| || || | |||||  || || ||||||||||| ||||| ||||| ||||| || ||||| |||||||| || |||| |||||  |     ||   |       | |  ||   |   | | |  ||||     | ||| |  | ||||  | | |    ||  | |||||    ||  ||  
GTTACAACCCAAGAAACAAGCCTTGCTGCGAGTTGCCGAAGAGTATATGCTCATGCACATGACTATCATATAAATTCAATATCAAATAACAGgtccttcacatcactacaccagtcacttgtatcagtatatgcatttgaatgtaccttagctaatgtttgagtttttcagctattgaatttgagtatgaca--

upper sequence: AT1G17720.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA08G20830.4 (Glycine max), 5'ss of exon 6
GTTACCAGCCAGGAGACTAACCTTGTGGCTAGATGCCGAAGAGTGTATGCCCATGCTCATGATTACCATATTAATTCAATCTCCAATAGCAGgtaatcgttttcctaagttttccctcaggttatatgttttactcttgatatctctttaacacgtttttgctgtctttctccttaatttttccatctcagg--
|| |||||||| ||||| |   |  ||||| ||||||| ||||| |||||||||||||||||||| ||||||||||| || || |||| ||||| ||      |||      | |||    |  | ||||         || |  ||||     ||| |   | | | | |  ||    | |  || | |    
GTAACCAGCCATGAGACCAGTTTGATGGCTCGATGCCGTAGAGTATATGCCCATGCTCATGATTATCATATTAATTCTATTTCAAATAACAGgtgatttgaaacctcgagggttcctataatagtctgttcagtgtcaaatcttgcttt--ttggttatctttatttcttttattgtagtgttgatttgaaagt

upper sequence: AT1G17720.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA07G01440.1 (Glycine max), 5'ss of exon 6
GTTACCAGCCAGGAGACTAACCTTGTGGCTAGATGCCGAAGAGTGTATGCCCATGCTCATGATTACCATATTAATTCAATCTCCAATAGCAGgtaatc-gttttcctaagttttccctcaggttatatgttttactcttgatatctctttaacacgtttttgctgtctttctccttaatttttccatctcagg--
|| |||||||| ||||| |   | |||||| |||| || ||||| |||||||||||||||||||| ||||||||||| || || |||| ||||| ||  |    | | ||  ||||   |  |||     || | | | || ||||   |     ||| |   | | | | |        | |  || | |    
GTAACCAGCCATGAGACCAGTTTGGTGGCTCGATGTCGTAGAGTATATGCCCATGCTCATGATTATCATATTAATTCTATTTCAAATAACAGgtgatttgaaaccttgagggttcct--attttaggctgttcagtgtgga-atcttgctttttggttatctttatttgttttaacgtagtgttgatttgaaagt

upper sequence: AT1G17720.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA13G42800.2 (Glycine max), 5'ss of exon 6
GTTACCAGCCAGGAGACTAACCTTGTGGCTAGATGCCGAAGAGTGTATGCCCATGCTCATGATTACCATATTAATTCAATCTCCAATAGCAGgtaatc--gttttcctaagttttccctcaggttatatgttttactcttgatatctctttaacacgtttttgctgtctttctccttaatttttc-catctcagg
|| |  ||||| || || | | | || ||  ||||||| ||||||||||| |||||||||||||| || || ||||| || || |||| |||||| |   |||||| ||  || | | |     ||        | | ||| | |   || |  ||  | | |  || ||     | ||| || |  || | |  
GTAAGTAGCCATGAAACCAGCTTAGTTGCCCGATGCCGTAGAGTGTATGCGCATGCTCATGATTATCACATCAATTCTATTTCAAATAACAGgtattttagttttcttattttgtactttgccatagtctagcaaattttggt-tgaattgagaaccctctgg--gtattcagtgtcaatcttgcatatattatt

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|116478423|gb|EG521015.1|EG521015
EST:     GTGTATGCCCATGCTCATGATTACCATATTAATTCAATCTCCAATAGCAG                         TGACGGAGAAACCTTTATTTCGGCTGATGATCTGCGAGTAAATCTCTGGAA
genomic: GTGTATGCCCATGCTCATGATTACCATATTAATTCAATCTCCAATAGCAGgtaatcgttt ... attgttacagTGACGGAGAAACCTTTATTTCGGCTGATGATCTGCGAGTAAATCTCTGGAA