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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CACAGACTATATCGTAGATGTTGTTTGTAAAAGAGCTGAAATTAATTACAATTATGGTGTTATTCTTATCCCCGAAGGTCTAATTGATTTCATACCTGAGgtatctatcactttgcagttttcacaattatttttttacctgtgtttccccctctgcacttgggattatgttttagtgttgttcatgtacaacctgtatgaatacacttctgatgatactcatttgtacttggtattgtgctatatgcag

Basic information

species Glycine max
transcript GLYMA15G11890.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G11890.1 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os06g13810.1 (Oryza sativa), 5'ss of exon 9
CACAGACTATATCGTAGATGTTGTTTGTAAAAGAGCTGAAATTAATTACAATTATGGTGTTATTCTTATCCCCGAAGGTCTAATTGATTTCATACCTGAGgtatctatcactttgcagttttcacaattatttttttacctgtgtt-tccccctctgcacttgggattatgttttagtgttgttcatgtacaacctgtatgaatacacttctgatgatactcatttgtacttggtattgtgctatatgcag
||| ||||| ||    ||  |||| || ||  | || ||| ||  |||||| |||||||| || |||||||| || ||||| ||||||||||| || |||||         ||  || | ||||   ||    | | |  |||||| || |  | |||| |   ||||   || |  |  | | |  |                                                               
CACCGACTACATTACCGACATTGTCTGCAAGCGTGCAGAACTTGGTTACAACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAGgt---------ttgacaatcttca---ttcacctgtgatttgtgttgtcacgatttgcattactgatttcattctgtttctttcctag---------------------------------------------------------------

upper sequence: GLYMA15G11890.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G059151_T01 (Zea mays), 5'ss of exon 9
CACAGACTATATCGTAGATGTTGTTTGTAAAAGAGCTGAAATTAATTACAATTATGGTGTTATTCTTATCCCCGAAGGTCTAATTGATTTCATACCTGAGgtatctatcactttgcagttttcacaattattttttta-cctgtgtttccccctctgcacttgggattatgttttagtgttgttcatgtacaacctgtatgaatacacttctgatgatactcatttgtacttggtattgtgctatatgcag
|||| |||| ||    ||| |  | || ||  | || ||  ||  |||||| ||||||||||| ||||| || ||||| || ||||||||||| || ||||| |    | | ||    | |      || | || | |  || | || |   |    | |||    || | ||| ||                                                                          
CACAAACTACATTACTGATATCATCTGCAAGCGTGCAGATCTTGGTTACAACTATGGTGTTATCCTTATACCAGAAGGCCTGATTGATTTCATCCCAGAGgtttggcactccttatgttctatgactttgtgttgtcagtctatattactgacatcactctt----ttctttttcag--------------------------------------------------------------------------

upper sequence: GLYMA15G11890.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G143862_T01 (Zea mays), 5'ss of exon 2
CACAGACTATATCGTAGATGTTGTTTGTAAAAGAGCTGAAATTAATTACAATTATGGTGTTATTCTTATCCCCGAAGGTCTAATTGATTTCATACCTGAGgtatctatcactttgcagttttcacaattatttttttacctgtgtttccccctctgcacttgggattatgttttagtgttgttcatgtacaacctgtatgaatacacttctgatgatactcatttgtacttggtattgtgctatatgcag
|||| |||| ||    ||| |  | || ||  | || ||  ||  |||||| ||||||||||| ||||| || ||||| || ||||||||||| || ||||| |     ||| |    | |      | | | | ||||| ||    |    |    || |    |  | || |  ||  |                                                                     
CACAAACTACATTACTGATATCATCTGCAAGCGTGCAGATCTTGGTTACAACTATGGTGTTATCCTTATACCAGAAGGCCTGATTGATTTCATCCCAGAGgtttg----actctatgttct-----gtgactgtgttacccgtagaacatattactgacataac-tccttttcttttgaag---------------------------------------------------------------------

upper sequence: GLYMA15G11890.1 (Glycine max), 5'ss of exon 9
lower sequence: AT4G04040.1 (Arabidopsis thaliana), 5'ss of exon 9
CACAGACTATATCGTAGATGTTGTTTGTAAAAGAGCTGAAATTAATTACAATTATGGTGTTATTCTTATCCCCGAAGGTCTAATTGATTTCATACCTGAGgtatcta-tcactttgcagttttcacaattatttttttacctgtgtttccccctctgcacttgggattatgttttagtgttgttcatgtacaacctgtatgaatacacttctgatgatactcatttgtacttggtattgtgctatatgcag
 |||||  | || || |||||  | | |||| |||| |||| |  ||| || || ||||| |||||| | || ||||||||||||||||| || |||||||||| |  | ||| |  | | |  | |||  |   ||    | |  | ||     |  | |||    | |  || |  |||  ||   ||  | |  |  | |                                                
TACAGATAACATTGTTGATGTGATCTATAAACGAGCAGAAAATGGTTATAACTACGGTGTCATTCTTGTTCCTGAAGGTCTAATTGATTTTATCCCTGAGgtatatggttactctcaaatct--ataatggtcaattcgagtctagtccc-----tatatttg----tgttcttcaacgttcatctattatgatccattggcag-----------------------------------------------

upper sequence: GLYMA15G11890.1 (Glycine max), 5'ss of exon 9
lower sequence: Vv10s0116g00360.t01 (Vitis vinifera), 5'ss of exon 9
CACAGACTATATCGTAGATGTTGTTTGTAAAAGAGCTGAAATTAATTACAATTATGGTGTTATTCTTATCCCCGAAGGTCTAATTGATTTCATACCTGAGgtatctatcactttgcagttttcacaattatttttttacctgtgtttccccctctgcacttgggattatgttttagtgttgttcatgtacaacctgtatgaatacacttctgatgatactcatttgtacttggtattgtgctatatgcag
 |||||||| || || |||||||| || ||| | || ||| ||  |||||| ||||||||||| ||||| || ||||| || ||||||||||||||||||||||     |  |||   || | | | |||||| |||| |  | |||      ||   |||| || |  || |        || | | | ||| ||| |   |    |||   |                                    
TACAGACTACATTGTTGATGTTGTCTGCAAACGTGCAGAACTTGGTTACAACTATGGTGTTATACTTATTCCAGAAGGCCTTATTGATTTCATACCTGAGgtata----atattg--attataagacttatttatttaacccttttttttgtcct---cttgtgaatgggtatc-----cttttaagca-aacttgtcttgctttttttcaagtt-----------------------------------

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|193651187|gb|FK598978.1|FK598978
EST:     TAATTGATTTCATACCTGAG                         GTCCAGCATCTCATTGCAGAACTAAATGAAATTCTTGCCCATGATACCGTG
genomic: TAATTGATTTCATACCTGAGgtatctatca ... ctatatgcagGTCCAGCATCTCATTGCAGAACTAAATGAAATTCTTGCCCATGATACCGTG
EST: gi|4396871|gb|AI495868.1|AI495868
EST:     ATTATGGTGTTATTCTTATCCCCGAAGGTCTAATTGATTTCATACCTGAG                         GTCCAGCATCTCATTGCAGAACTAAATGAAATTCTTGCCCATGATACCGTG
genomic: ATTATGGTGTTATTCTTATCCCCGAAGGTCTAATTGATTTCATACCTGAGgtatctatca ... ctatatgcagGTCCAGCATCTCATTGCAGAACTAAATGAAATTCTTGCCCATGATACCGTG
EST: gi|17021166|gb|BM092200.1|BM092200
EST:     ATTATGGTGTTATTCTTATCCCCGAAGGTCTAATTGATTTCATACCTGAG                         GTCCAGCATCTCATTGCAGAACTAAATGAAATTCTTGCCCATGATACCGTG
genomic: ATTATGGTGTTATTCTTATCCCCGAAGGTCTAATTGATTTCATACCTGAGgtatctatca ... ctatatgcagGTCCAGCATCTCATTGCAGAACTAAATGAAATTCTTGCCCATGATACCGTG
EST: gi|12773861|gb|BG238788.1|BG238788
EST:     ATTATGGTGTTATTCTTATCCCCGAAGGTCTAATTGATTTCATACCTGAG                         GTCCAGCATCTCATTGCAGAACTAAATGAAATTCTTGCCCATGATACCGTG
genomic: ATTATGGTGTTATTCTTATCCCCGAAGGTCTAATTGATTTCATACCTGAGgtatctatca ... ctatatgcagGTCCAGCATCTCATTGCAGAACTAAATGAAATTCTTGCCCATGATACCGTG