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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGTGGTTGGAAAGTTGTTGCAAGTTTTGAAGGCAATTTCCCCAATCGTATCAAAAAGCTTCCGTTGGATAGACATTTTGACTTGAACAATGTCAAAAGGgtgggtttctgaattttcctgcctcaaattgtataaacaagtaacggctttagactggagtgtgacagattgattttccaattgtttcag

Basic information

species Arabidopsis thaliana
transcript AT1G59610.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G59610.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: LOC_Os06g13820.1 (Oryza sativa), 5'ss of exon 9
AAGTGGTTGGAAAGTTGTTGCAAGTTTTGAAGGCAATTTCCCCAATCGTATCAAAAAGCTTCCGTTGGATAGACATTTTGACTTGAACAATGTCAAAAGGgtgggtttctgaattttcctgcctcaaattgtataaacaagtaacggctttagactggagtgtgacagattgattttccaattgtttcag
   |||||||||||||||||||||||||||||| || |||||  |  | || ||| |||| ||  |||| || || |||||| | | |||||| ||||||||  | ||        |         | |  ||  | || | |    |       |   |        |  |  ||  |     ||  ||
GTCTGGTTGGAAAGTTGTTGCAAGTTTTGAAGGGAAATTCCCAGAGAGAATTAAACAGCTGCCACTGGACAGGCACTTTGACCTCAGCAATGTTAAAAGGgtaagattggatccagtttcaggattagtgctactatcaggcattttcccatcttttatgaacactgaacagtattctctgacattctag

upper sequence: AT1G59610.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: LOC_Os02g50550.1 (Oryza sativa), 5'ss of exon 9
AAGTGGTTGGAAAGTTGTTGCAAGTTTTGAAGGCAATTTCCCCAATCGTATCAAAAAGCTTCCGTTGGATAGACATTTTGACTTGAACAATGTCAAAAGGgtgggtttctgaattttcctgcctcaaattgtataa-acaagtaacggctttagactggagtgtgacagattgattttccaattgtttcag
   |||||||||| |||||||||| ||||| || || || ||  || | |||||| ||||||| ||||| || ||||||||  | |||||||||||||||||   ||    |    | ||      |||| || |        |      |||   ||     ||  |  || || ||| |          
GTCTGGTTGGAAAATTGTTGCAAGCTTTGAGGGGAAGTTTCCAGATAGGATCAAACAGCTTCCTTTGGACAGGCATTTTGATATTAACAATGTCAAAAGGgtaaattcaaaagcccttctagaattaattttagagtgggcacactttgcttatgatgattactgttatctttatattctag---------

upper sequence: AT1G59610.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G157462_T01 (Zea mays), 5'ss of exon 9
AAGTGGTTGGAAAGTTGTTGCAAGTTTTGAAGGCAATTTCCCCAATCGTATCAAAAAGCTTCCGTTGGATAGACATTTTGACTTGAACAATGTCAAAAGGgtgggtttctgaattttcctgcctcaaattgtataaacaagtaacggctttagactggagtgtgacagattgattttccaattgtttcag
|  ||| |||||| |||||||||||||||||||||| || ||  |  | || ||| |||| ||||||||  ||||||| ||  | ||||| |||||||||||  | |        ||||    | | ||||          |  | |  ||||       |   ||| |||  | | |  |   |     
ATCTGGATGGAAAATTGTTGCAAGTTTTGAAGGCAAGTTTCCAGACAGAATTAAACAGCTACCGTTGGACCGACATTTCGATCTCAACAACGTCAAAAGGgtatgatcac-----ttccaattttacattgagctc-tggttggcag--ttagcacatgattaaacacatttctctccacacaatag---

upper sequence: AT1G59610.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA07G40300.1 (Glycine max), 5'ss of exon 9
AAGTGGTTGGAAAGTTGTTGCAAGTTTTGAAGGCAATTTCCCCAATCGTATCAAAAAGCTTCCGTTGGATAGACATTTTGACTTGAACAATGTCAAAAGGgtgggtttctgaattttcctgcctcaaattgtataaacaagtaacggct-------ttagactggagtgtgacagattgattttccaatt---gtttcag----------
 | |||||||||||||||||| ||||||||||| ||||| || ||  | |||||  | |||||  | || ||||| |||||| | ||||||||||| |||||     |      ||   |   ||| ||||| ||   |       | |       ||    ||     |||     |   ||    |||    |||  |          
TAATGGTTGGAAAGTTGTTGCTAGTTTTGAAGGGAATTTTCCTAACAGAATCAAGCAACTTCCTATCGACAGACACTTTGACATAAACAATGTCAAGAGGgtaaaccttctcccttgaatttgtcatattgtttaggtagaatttagttcattttattctcttgacacttgaggtgcttgcttctatattcccattttggcttatttcag

upper sequence: AT1G59610.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA17G00480.1 (Glycine max), 5'ss of exon 9
AAGTGGTTGGAAAGTTGTTGCAAGTTTTGAAGGCAATTTCCCCAATCGTATCAAAAAGCTTCCGTTGGATAGACATTTTGACTTGAACAATGTCAAAAGGgtgggtttctgaattttcctgcctcaaattgtataaacaagtaacggct----ttagactggagtgtgacagattgatt-ttccaattgtttcag------------
 | |||||||||||||||||| ||||||||||| ||||| || ||  | |||||  | |||||  | || ||||| |||||| | ||||||||||| |||||   | |      ||   |   ||| ||||| ||   |    |  | |    |||  |||  |       |  || ||  | | ||  | |||             
TAATGGTTGGAAAGTTGTTGCCAGTTTTGAAGGGAATTTTCCTAACAGAATCAAGCAACTTCCTATTGACAGACACTTTGACATAAACAATGTCAAGAGGgtaaatcttctcccttgaatttgtcatattgtttaggtagaatatagttcatcttattctgttgacacttggggtgcttgcttctatattctcattttggctttcag

upper sequence: AT1G59610.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv12s0035g01740.t01 (Vitis vinifera), 5'ss of exon 9
AAGTGGTTGGAAAGTTGTTGCAAGTTTTGAAGGCAATTTCCCCAATCGTATCAAAAAGCTTCCGTTGGATAGACATTTTGACTTGAACAATGTCAAAAGGgtgggtttctgaatt-ttcctgcctcaaattgtataa-----acaagtaacggctttagac---tggagtgtgacagattgattttccaattgtttcag
 || |||||||||||||||||||||||||||||||||||||||||  | |||||  |||| || || |||| |||||||||  | |||||||||||||| ||  | ||||   || |||      ||| || | |       | |  |   |   | || |   |   || ||  |  ||  ||||| | |  |  |||
TAGCGGTTGGAAAGTTGTTGCAAGTTTTGAAGGCAATTTCCCCAACAGGATCAAGCAGCTACCTTTAGATAAACATTTTGATATAAACAATGTCAAAAGAgtatggttctcttttattcacattccaacttttgtgccttttaaatatgttgttgtaaggcctttattgtttgcaatgttccttttcaattgataccag

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|125206571|gb|EL221525.1|EL221525
EST:     CCGTTGGATAGACATTTTGACTTGAACAATGTCAAAAGG                         ATCGTGTTGGAGGCTGATGGTTATCAACCTTATCTCATATCTCCAGAGAAA
genomic: CCGTTGGATAGACATTTTGACTTGAACAATGTCAAAAGGgtgggtttct ... attgtttcagATCGTGTTGGAGGCTGATGGTTATCAACCTTATCTCATATCTCCAGAGAAA
EST: gi|164125104|gb|EL988846.1|EL988846
EST:     CAAACAGCTTCCGTTGGATAGACATTTTGACTTGAACAATGTCAAAAGG                         ATCGTGTTGGAGGCTGATGGTTATCAACCTTATCTTATATCTCCAGAGAAA
genomic: CAAAAAGCTTCCGTTGGATAGACATTTTGACTTGAACAATGTCAAAAGGgtgggtttct ... attgtttcagATCGTGTTGGAGGCTGATGGTTATCAACCTTATCTCATATCTCCAGAGAAA
EST: gi|124724979|gb|EH816381.1|EH816381
EST:     CGTTGGATAGACATTTTGACTTGAACAATGTCAAAAGG                         ATCGTGTTGGAG
genomic: CGTTGGATAGACATTTTGACTTGAACAATGTCAAAAGGgtgggtttct ... attgtttcagATCGTGTTGGAG