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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCGTCGCAAGAACCGATCTTTGGAGGGTCTTCAAACAAATGTCCAGAGGCTGAAAACCTACAAGACCAAGTTAGTCATTTTCCCGCGTCGTGCCCGCAAGgtcaaggtaatcattataaacaattggtctatggttcagttgtttaatgaattgttggatttggtactgatttcgtacttgttctgttttcgtttgtgtgttag

Basic information

species Arabidopsis thaliana
transcript AT3G49010.4
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G49010.4 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os06g02510.3 (Oryza sativa), 5'ss of exon 4
TCGTCGCAAGAACCGATCTTTGGAGGGTCTTCAAACAAATGTCCAGAGGCTGAAAACCTACAAGACCAAGTTAGTCATTTTCCCGCGTCGTGCCCGCAAGgtcaaggtaatcattataaacaattggtctatggttcagttgtttaatgaattgttggatttggtactgatttcgtacttgttctgttttcgtttgtgtgttag
       |||||||| ||  | || ||||| ||  | ||||||||||||||||| ||||||||| ||||| | ||||| |||||  | |||||||||||||||||||| |           | ||   |      | ||   |  | | ||        ||  | |  |||  | ||| |   |    | | || |        
------TAAGAACCGCTCACTTGAAGGTCTGCAGGCCAATGTCCAGAGGCTGAAGACCTACAAGGCCAAGCTTGTCATCTTCCCAAGACGTGCCCGCAAGGTCAAGgtga-------gggaactttacccgc--cttagccttacacttaaacccactgttctgaa--gatcccttacattaaccaactcctttcgcag-----

upper sequence: AT3G49010.4 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA09G34760.2 (Glycine max), 5'ss of exon 4
TCGTCGCAAGAACCGATCTTTGGAGGGTCTTCAAACAAATGTCCAGAGGCTGAAAACCTACAAGACCAAGTTAGTCATTTTCCCGCGTCGTGCCCGCAAGgtcaaggtaatcattataaacaattggtctatggttcagttgtttaatgaattgttggatttggtactgatttcgtacttgttctgttttcgt-ttgtgtgttag----------------
||||||||||||||| ||||||||  |||| ||| | ||||| |||||||||||||| |||||| |||| || ||  | |||||  | || || | |||||| ||||||||    ||   | |||  |||||  ||   ||||   | | ||| |    | || |   | ||    |       |||||  || |  ||||  |                 
TCGTCGCAAGAACCGTTCTTTGGAAAGTCTGCAAGCTAATGTGCAGAGGCTGAAAACATACAAGGCCAAATTGGTTGTGTTCCCAAGACGGGCACACAAGgttaaggtaattcagatgttccatta-tctat--tttgattgtggtaggcattttcatttctgatgaaggttgaa-atgaaagatgtttgtgtgtcatgtgacactgttgttttattgtag

upper sequence: AT3G49010.4 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA04G14640.2 (Glycine max), 5'ss of exon 4
TCGTCGCAAGAACCGATCTTTGGAGGGTCTTCAAACAAATGTCCAGAGGCTGAAAACCTACAAGACCAAGTTAGTCATTTTCCCGCGTCGTGCCCGCAAGgtcaaggtaatcattataaacaattggtctatggttcagttgtttaatgaat-tgttggatttggtactg--atttc--gtacttgtt-----ctgttttcgtttgtgtgttag---------------------
      ||||||||| ||||||||  |||| ||| | ||||| |||||||||||||| |||||| |||| || ||  | |||||  | || || |  ||||| ||||||||    ||   |||||    | || ||   |||| |    | | | ||   |||| ||     |||||  ||    | |         |   |||||||||  |                      
------CAAGAACCGTTCTTTGGAAAGTCTGCAAGCTAATGTGCAGAGGCTGAAAACATACAAGGCCAAATTGGTTGTGTTCCCAAGACGGGCACAGAAGGTTAAGgtaatacagatgttcaatta---tctgttttgattgtgtgggcattgtcttaattttgatatcatcatttctggtgaaaggtaaaaaggaatgatgtttgtgtgaaatctgactgttgttttattgtag

upper sequence: AT3G49010.4 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA09G34760.3 (Glycine max), 5'ss of exon 5
TCGTCGCAAGAACCGATCTTTGGAGGGTCTTCAAACAAATGTCCAGAGGCTGAAAACCTACAAGACCAAGTTAGTCATTTTCCCGCGTCGTGCCCGCAAGgtcaaggtaatcattataaacaattggtctatggttcagttgtttaatgaattgttggatttggtactgatttcgtacttgttctgttttcgt-ttgtgtgttag----------------
      ||||||||| ||||||||  |||| ||| | ||||| |||||||||||||| |||||| |||| || ||  | |||||  | || || | |||||| ||||||||    ||   | |||  |||||  ||   ||||   | | ||| |    | || |   | ||    |       |||||  || |  ||||  |                 
------CAAGAACCGTTCTTTGGAAAGTCTGCAAGCTAATGTGCAGAGGCTGAAAACATACAAGGCCAAATTGGTTGTGTTCCCAAGACGGGCACACAAGGTTAAGgtaattcagatgttccatta-tctat--tttgattgtggtaggcattttcatttctgatgaaggttgaa-atgaaagatgtttgtgtgtcatgtgacactgttgttttattgtag

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|86018575|gb|DR314321.1|DR314321
EST:     TGAAAACCTACAAGACCAAGTTAGTCATTTTCCCGCGTCGTGCCCGCAAG                         GTCAAGGCTGGTGACTCTACACCAGAAGAGTTGGCTAATGCTACCCAAGTT
genomic: TGAAAACCTACAAGACCAAGTTAGTCATTTTCCCGCGTCGTGCCCGCAAGgtcaaggtaa ... tgtgtgttagG-C-----TGGTGACTCTACACCAGAAGAGTTGGCTAATGCTACCCAAGTT
EST: gi|86074609|gb|DR370366.1|DR370366
EST:     TGAAAACCTACAAGACCAAGTTAGTCATTTTCCCGCGTCGTGCCCGCAAGGTCAAG                    
genomic: TGAAAACCTACAAGACCAAGTTAGTCATTTTCCCGCGTCGTG-CC-C---G-CAAGgtcaaggtaa ... tgtgt
EST: gi|86076156|gb|DR371913.1|DR371913
EST:     TGAAAACCTACAAGACCAAGTTAGTCATTTTCCCGCGTCGTGCCCGCAAGGTCAAG                    
genomic: TGAAAACCTACAAGACCAAGTTAGTCATTTTCCCGCGTCGTG-CC-C---G-CAAGgtcaaggtaa ... tgtgt
EST: gi|47829477|gb|CK119161.1|CK119161
EST:     TGAAAACCTACAAGACCAAGTTAGTCATTTTCCCGCGTCGTGCCCGCAAGGTCAAG                    
genomic: TGAAAACCTACAAGACCAAGTTAGTCATTTTCCCGCGTCGTG-CC-C---G-CAAGgtcaaggtaa ... tgtgt
EST: gi|86085358|gb|DR381117.1|DR381117
EST:     TGAAAACCTACAAGACCAAGTTAGTCATTTTCCCGCGTCGTGCCCGCAAGGTCAAG                    
genomic: TGAAAACCTACAAGACCAAGTTAGTCATTTTCCCGCGTCGTG-CC-C---G-CAAGgtcaaggtaa ... tgtgt
EST: gi|47831958|gb|CK121642.1|CK121642
EST:     TGAAAACCTACAAGACCAAGTTAGTCATTTTCCCGCGTCGTGCCCGCAAGGTCAAG                    
genomic: TGAAAACCTACAAGACCAAGTTAGTCATTTTCCCGCGTCGTG-CC-C---G-CAAGgtcaaggtaa ... tgtgt
EST: gi|86074296|gb|DR370053.1|DR370053
EST:     TGAAAACCTACAAGACCAAGTTAGTCATTTTCCCGCGTCGTGCCCGCAAGGTCAAG                    
genomic: TGAAAACCTACAAGACCAAGTTAGTCATTTTCCCGCGTCGTG-CC-C---G-CAAGgtcaaggtaa ... tgtgt
EST: gi|86018573|gb|DR314319.1|DR314319
EST:     TGAAAACCTACAAGACCAAGTTAGTCATTTTCCCGCGTCGTGCCCGCAAG                         GTCAAGGCTGGTGACTCTACACCAGAAGAGTTGGCTAATGCTACC-AAGTT
genomic: TGAAAACCTACAAGACCAAGTTAGTCATTTTCCCGCGTCGTGCCCGCAAGgtcaaggtaa ... tgtgtgttagG-C-----TGGTGACTCTACACCAGAAGAGTTGGCTAATGCTACCCAAGTT
EST: gi|116471273|gb|EG513865.1|EG513865
EST:     TGAAAACCTACAAGACCGAGTTAGTCATTTTCCCGCGTCGTGCCCGCAAGGTCAAG                    
genomic: TGAAAACCTACAAGACCAAGTTAGTCATTTTCCCGCGTCGTG-CC-C---G-CAAGgtcaaggtaa ... tgtgt