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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTTCTGTTCTTCATTCCCAACCAAAGTCAACTGTTGGTACTCCTGCATACATTGCACCAGAGATTCTTCTTCGACAGGAATATGATGGCAAGgtaaggccatgagaccaattcctctgtctagagttcaaaccagcttatccatatgactgtttataccacaaatattctttgagttgtcctctgaaatagctggtgttacatttttccag

Basic information

species Arabidopsis thaliana
transcript AT3G50500.2
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G50500.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os03g41460.1 (Oryza sativa), 5'ss of exon 4
TCTTCTGTTCTTCATTCCCAACCAAAGTCAACTGTTGGTACTCCTGCATACATTGCACCAGAGATTCTTCTTCGACAGGAATATGATGGCAAGgtaaggcca----tgagacca-attcctctgtctagagt-tcaaacca--gcttatccatatgac-tgtttataccacaaatattctttgagttgtcctctgaaatagctggtgttacatttttccag---------------------------------------------
|| |||||||||||||| |||||||| || |||||||| ||||| |||||||| || || ||| |||| ||     ||||||||||||| ||||||     |    |||    | || | |  |||  || | |     ||  |  | ||  | ||   | || ||||  || | ||        || ||| || ||  |  ||    ||| || |||  |                                             
TCGTCTGTTCTTCATTCGCAACCAAAATCTACTGTTGGAACTCCGGCATACATCGCTCCTGAGGTTCTGCTGAAGAAGGAATATGATGGAAAGgtactcatatatttgaatttacatgcttgcgtcctgaatatggtgtcatggtgtctcagtctggtatattgatacatcatacatgtaccattttctccacttaagcaattg----tactttcttcgcgaggcatcagtgcgattgctgactaaatatttgtttctcaacaaag

upper sequence: AT3G50500.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G171435_T02 (Zea mays), 5'ss of exon 6
TCTTCTGTTCTTCATTCCCAACCAAAGTCAACTGTTGGTACTCCTGCATACATTGCACCAGAGATTCTTCTTCGACAGGAATATGATGGCAAGgtaaggccatgagaccaattcctctgtctagagttcaaaccagcttatccatatgactgtttataccacaaatattctttgagttgtcctctgaaatagctggtgttacatttttccag
|| |||||||||||||||||||| |||||||||||||| || ||||| || |||||||| ||  ||||  |   | | ||||||||||||||||||      || |||   || |  | | ||   || | |   |  | |    |    ||| |||||| |      ||  ||   |||  |   | | | |  |||   | |        
TCATCTGTTCTTCATTCCCAACCGAAGTCAACTGTTGGAACACCTGCTTATATTGCACCTGAAGTTCTGTTGAAAAAAGAATATGATGGCAAGgtac--ttgtgcgac---tttccttatttatc-ttgagatgtgtcttta---agagttgtgtatacctctgca--tcagtgcactgtagttccata-aacatgtgccgcgtg-------

upper sequence: AT3G50500.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G138861_T01 (Zea mays), 5'ss of exon 7
TCTTCTGTTCTTCATTCCCAACCAAAGTCAACTGTTGGTACTCCTGCATACATTGCACCAGAGATTCTTCTTCGACAGGAATATGATGGCAAGgtaaggccatgagaccaattcctctgtctagagttcaaaccagcttatccatatgactgtttataccacaaatattctttgagttgtcctctgaaatagctggtgttacatttttccag
|| ||||||||||||||||| || ||||| |||||||| || ||||| || |||||||| ||  || |  |   | | ||||||||||||||||||      ||  | || ||  | | ||| |||        |   | ||   |    |||  ||||| |      ||  ||   |||  |   | |||  || ||  ||||        
TCATCTGTTCTTCATTCCCAGCCGAAGTCCACTGTTGGAACACCTGCTTATATTGCACCTGAAGTTTTGTTGAAAAAAGAATATGATGGCAAGgtac--ttgtgctatcactttttttatcttgaga-------aatgtgtcttgagagttgtgcatacctctgca--tcagtgcactgttgttccatatacatg-tgccacatg-------

upper sequence: AT3G50500.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA05G09460.1 (Glycine max), 5'ss of exon 6
TCTTCTGTTCTTCATTCCCAACCAAAGTCAACTGTTGGTACTCCTGCATACATTGCACCAGAGATTCTTCTTCGACAGGAATATGATGGCAAGgtaaggccatgagaccaattcctctgtctagagttcaaaccagcttatccatatgactgtttataccacaaatattctttgagttgtcctctgaaatagctggtgttacatttttccag
||||| || |||||||| ||||||||||||||||| || ||||||||||| ||||| |||||  |  |  |   ||| || |||||||||||||||  |      |   | |   |   |  |  ||      |   || ||  ||    | ||  |   ||   ||       | || |  | | || | |      ||            
TCTTCAGTGCTTCATTCACAACCAAAGTCAACTGTGGGAACTCCTGCATATATTGCTCCAGAAGTATTGTTGAAACAAGAGTATGATGGCAAGgtagagt-----ggttattgtttagtttcatggtattgttc--tttttctgtagatttattactgttactcttaaatgaacaattttgttgttaacttgtcatcatt------------

upper sequence: AT3G50500.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA17G20610.4 (Glycine max), 5'ss of exon 6
TCTTCTGTTCTTCATTCCCAACCAAAGTCAACTGTTGGTACTCCTGCATACATTGCACCAGAGATTCTTCTTCGACAGGAATATGATGGCAAGgtaaggccatga--gaccaattcctctgtctagagttcaaaccagcttatccatatgactgtttataccacaaatattctttgagttgtcctctgaaatagctggtgttacatttttccag
||||| || |||||||| ||||||||||||||||| || ||||||||||| ||||| |||||  |  | ||   ||| || |||||||||||||||  |   | |  |   | || |   || | |   |    |  |   ||  || | | | ||  |  ||||| ||     |||    |  | | |  || || ||               
TCTTCAGTGCTTCATTCACAACCAAAGTCAACTGTGGGAACTCCTGCATATATTGCTCCAGAAGTATTGCTGAAACAAGAGTATGATGGCAAGgtagagtgtttactgtttagtttcatggtattgttctttttct-gtagattaat-taattattactgtcacaattaaa---tgaacaattttgt-agttaacttgt---------------

upper sequence: AT3G50500.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA01G39020.2 (Glycine max), 5'ss of exon 6
TCTTCTGTTCTTCATTCCCAACCAAAGTCAACTGTTGGTACTCCTGCATACATTGCACCAGAGATTCTTCTTCGACAGGAATATGATGGCAAGgtaaggccatgagaccaattcctctgtctagagttcaaaccagcttatccatatgactgtttataccacaaatattctttgagttgtcctctgaaatagctggtgttacatttttccag
||||| || |||||||| ||||| ||||||||||| || ||||| ||||| ||||| |||||  |  | ||    || || |||||||||||||||  |   |      | || |   ||||     |    |    |||  | ||| | |   || |   | |    |  |  ||  ||    |        |||                
TCTTCCGTGCTTCATTCACAACCTAAGTCAACTGTGGGAACTCCAGCATATATTGCTCCAGAAGTATTGCTGAAGCAAGAGTATGATGGCAAGgtagagtacttt--ttagtttcatagtcttactctttttctgtattaatcttataatttgatagagggcgagccctggtgcagcggtaaagttgtgcc-ttgg----------------

upper sequence: AT3G50500.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA11G06250.1 (Glycine max), 5'ss of exon 6
TCTTCTGTTCTTCATTCCCAACCAAAGTCAACTGTTGGTACTCCTGCATACATTGCACCAGAGATTCTTCTTCGACAGGAATATGATGGCAAGgtaaggccatgagaccaattcctctgtctagagttcaaaccagcttatccatatgactgtttata--ccacaaatattctttgagttgtc--ctctgaaatagctggtgttacatttttccag
||||| || |||||||| ||||| ||||||||||| || ||||| ||||| ||||| |||||  |  | ||    || || |||||||||||||||  |   |      | || |   |||| |   |    |    |||  |  ||||   ||| |   | |   |  |   |||| || |   | ||| ||||                     
TCTTCGGTGCTTCATTCACAACCTAAGTCAACTGTGGGAACTCCAGCATATATTGCTCCAGAAGTATTGCTGAAGCAAGAGTATGATGGCAAGgtagagtactct--ttagtttcatagtcttgctctttttctgtattaatctcatgataatttgtgtgctagtgagttatattgacttataaaccctggaata---------------------

upper sequence: AT3G50500.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv07s0197g00080.t01 (Vitis vinifera), 5'ss of exon 6
TCTTCTGTTCTTCATTCCCAACCAAAGTCAACTGTTGGTACTCCTGCATACATTGCACCAGAGATTCTTCTTCGACAGGAATATGATGGCAAGgtaaggccatgagaccaattcctctgtctagagttcaaaccagcttatccatatgactgtttataccacaaatattctttgagttgtcctctgaaatagctggtgttacatttttccag
||||| || |||||||| |||||||| ||||||||||| ||||||||||||||||| |||||  |  |  |  | || ||||| |||||||||||||  ||||      ||||  |   |||  | |||||   ||||| | ||| |  ||     | | |   ||     || || | |      ||| |  | ||               
TCTTCGGTGCTTCATTCACAACCAAAATCAACTGTTGGAACTCCTGCATACATTGCTCCAGAAGTATTAATGAGGCAAGAATACGATGGCAAGgtaaaaccat----ttaattt-tacatcttaatttcaattaagcttgtgcatttttctaa--gttctatccatgaaactttagctttatcaataaagatgtagtaag------------

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|124768642|gb|EH858772.1|EH858772
EST:     ATTGCACCAGAGATTCTTCTTCGACAGGAATATGATGGCAAG                         CTTGCAGATGTATGGTCTTGCGGTGTAACATTATATGTAATGTTGGTTGG
genomic: ATTGCACCAGAGATTCTTCTTCGACAGGAATATGATGGCAAGgtaaggccat ... atttttccagCTTGCAGATGTATGGTCTTGCGGTGTAACATTATATGTAATGTTGGTTGG
EST: gi|124912723|gb|EH986714.1|EH986714
EST:     CTGCATACATTGCACCAGAGATTCTTCTTCGACAGGAATATGATGGCAAG                         CTTGCAGATGTATGGTCTTGCGGTGTAACATTA
genomic: CTGCATACATTGCACCAGAGATTCTTCTTCGACAGGAATATGATGGCAAGgtaaggccat ... atttttccagCTTGCAGATGTATGGTCTTGCGGTGTAACATTA