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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAAAGTTTGCTCAACGATCAGAGAGAGTCAAATCTGTTGATCTGCATCCTACTGAACCATGgtaatttcaaatttgattctgccatcttgcaacttagttatatgttatattttggatgtgttgatggaataacaattttcacagttgctgtgggtagtactgtatgtttgtacttttattgctgctacaaatgactgacttaataaacaacacggtgttacag

Basic information

species Arabidopsis thaliana
transcript AT3G15980.3
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G15980.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA08G22140.1 (Glycine max), 5'ss of exon 3
AGAAAGTTTGCTCAACGATCAGAGAGAGTCAAATCTGTTGATCTGCATCCTACTGAACCATGgtaat--ttcaaatttgattctgccatcttgcaacttagttatatgttatattttg-gatgtgttgatgga---ataacaattttcacagtt-gctgtgggtagtactgtatgtttgtacttttattgctgctacaaatgactgacttaataaacaacacggtgttacag
 ||||| |||| ||| ||||||||||||| || ||||| ||||| ||||| || |||||||||||||   | |   ||| || |||    |||  | ||  | |   |   ||||||  ||| ||    |  |   ||||| |  || | | || ||||    |                                                                    
CGAAAGCTTGCCCAAAGATCAGAGAGAGTAAAGTCTGTGGATCTACATCCAACAGAACCATGgtaatgccttatccttggttgtgct---ttgtgattttatcactggaattattttaagatatgaaactaaatttataaccagctttataatttgctgctcatt-------------------------------------------------------------------

upper sequence: AT3G15980.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA07G03890.1 (Glycine max), 5'ss of exon 3
AGAAAGTTTGCTCAACGATCAGAGAGAGTCAAATCTGTTGATCTGCATCCTACTGAACCATGgtaat--ttcaaatttgattctgccatcttgcaacttagttatatgttatattttgg-atgtgttgatgga---ataacaattttcacagttgctgtgggtagtactgtatgtttgtacttttattgctgctacaaatgactgacttaataaacaacacggtgttacag
 ||||| |||| ||| ||||||||||||| || ||||| ||||| ||||| || |||||||||||||   | |   ||| || ||   | |||  | ||  | |   |   ||||||   || ||  | |  |   ||||| |  || | | ||  ||| | |  |                                                                 
CGAAAGCTTGCGCAAAGATCAGAGAGAGTAAAGTCTGTGGATCTACATCCAACAGAACCATGgtaatgccttatccttggttgtg---ttttgtgattttatcactagaattattttaatatatgaagctaaatttataaccacctttataatt--tgttgctcatt----------------------------------------------------------------

upper sequence: AT3G15980.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 3
AGAAAGTTTGCTCAACGATCAGAGAGAGTCAAATCTGTTGATCTGCATCCTACTGAACCATGgtaatttcaaatttgattctgccatcttgcaacttagtt----atatgttatattttggatgtgttgat--ggaata---acaattttcacagttgctgtgggtagtac---tgtatgtt-tgtacttttattgctgctacaaatgactgacttaataaac---aacacggtgttacag
 | ||| |||| ||| ||||||||||||| |||| ||| ||||||||||| || || ||||||||||  |   | || | |||   | |||   || | ||     |||| | |       |  |  | ||  ||||||     | |||     | |   ||   || |||   ||| |||| |  |  |||| || ||  |  | | | | | ||  |  |    |||  | |  | |||
CGCAAGCTTGCGCAAAGATCAGAGAGAGTGAAATGTGTGGATCTGCATCCAACAGAGCCATGgtaatgcctcctctgctgctgttgttttgtttctgaattcaatttatgatgtgaagctaacatcataattgggaatatctgtagtttgtgaggatttagtcactaataccgatgtttgttgtacaactttactgttggcatcatttaattaattgcttgatgcaaacttgttaattcag

upper sequence: AT3G15980.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 5'ss of exon 3
AGAAAGTTTGCTCAACGATCAGAGAGAGTCAAATCTGTTGATCTGCATCCTACTGAACCATGgtaatttcaaatttgattctgccatcttgcaacttagttatatgttatattttggatgtgttgatggaataacaattttcacagttgctgtgggtagtactgtatgtttgtacttttattgctgctacaaatgactgacttaataaacaacacggtgttacag
|| ||  | || ||| ||||||||||||| |||||||| |||||||||||  |||| |||||||||||  ||  |   ||  |||||  |  |  |   || | | | | |||||   ||  ||||      ||  |   | | |  |    |||  | |   |                                                             
AGGAAACTCGCGCAAAGATCAGAGAGAGTAAAATCTGTGGATCTGCATCCATCTGAGCCATGgtaattataatat--gtttggccataatttatgtactttttgtttcaaattttctctgacttgaataggaaatgagacttagatgtttgctggccattgtgg-------------------------------------------------------------

upper sequence: AT3G15980.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 5'ss of exon 3
AGAAAGTTTGCTCAACGATCAGAGAGAGTCAAATCTGTTGATCTGCATCCTACTGAACCATGgtaatttcaaatttgattctgccatcttgcaacttagttatatgttatattttggatgtgttgatggaataaca-attttcacagttgctgtgggtagtactgtatgtttgtacttttatt-gctgctacaaatgactgacttaataaacaacacggtgttacag
|||||  |||| ||| |||| || ||||| ||||| || ||||| ||||| ||||||||||||||||||      | ||  |  | || |  || ||   | | | |      || | |      ||  ||      ||||| |   ||   |    |  |  |  |   || | |  |||   | |||| ||                                  
AGAAAACTTGCACAAAGATCTGAAAGAGTAAAATCAGTGGATCTACATCCAACTGAACCATGgtaatttt---cctcatcttcacttcgt-taatttgagtttgtctc---ccttaggtcaaaaaatataacgctgcatttttaagcttttagacaatgtttatagaaaattttgcaattacaagatgctgcatgcag-----------------------------

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|116382436|gb|EG425028.1|EG425028
EST:     CAACGATCAGAGAGAGTCAAATCTGTTGATCTGCATCCTACTGAACCATG                         GATTCTAGCAAGTTTGTATTCTGGAACCGCGTGTATTTGGAACTACCAGAC
genomic: CAACGATCAGAGAGAGTCAAATCTGTTGATCTGCATCCTACTGAACCATGgtaatttcaa ... ggtgttacagGATTCTAGCAAGTTTGTATTCTGGAACCGTGTGTATTTGGAACTACCAGAC
EST: gi|116382435|gb|EG425027.1|EG425027
EST:     CAACGATCAGAGAGAGTCAAATCTGTTGATCTGCATCCTACTGAACCATG                         GATTCTAGCAAGTTTGTATTCTGGAACCGCGTGTATTTGGAACTACCAGAC
genomic: CAACGATCAGAGAGAGTCAAATCTGTTGATCTGCATCCTACTGAACCATGgtaatttcaa ... ggtgttacagGATTCTAGCAAGTTTGTATTCTGGAACCGTGTGTATTTGGAACTACCAGAC
EST: gi|116382437|gb|EG425029.1|EG425029
EST:     CAACGATCAGAGAGAGTCAAATCTGTTGATCTGCATCCTACTGAACCATG                         GATTCTAGCAAGTTTGTATTCTGGAACCGCGTGTATTTGGAACTACCAGAC
genomic: CAACGATCAGAGAGAGTCAAATCTGTTGATCTGCATCCTACTGAACCATGgtaatttcaa ... ggtgttacagGATTCTAGCAAGTTTGTATTCTGGAACCGTGTGTATTTGGAACTACCAGAC
EST: gi|116382434|gb|EG425026.1|EG425026
EST:     CAACGATCAGAGAGAGTCAAATCTGTTGATCTGCATCCTACTGAACCATG                         GATTCTAGCAAGTTTGTATTCTGGAACCGCGTGTATTTGGAACTACCAGAC
genomic: CAACGATCAGAGAGAGTCAAATCTGTTGATCTGCATCCTACTGAACCATGgtaatttcaa ... ggtgttacagGATTCTAGCAAGTTTGTATTCTGGAACCGTGTGTATTTGGAACTACCAGAC