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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAGTATGCTTTTCACTATGCCAAGGCTCATGGAAGAGAGAGGGTTTCTGCCATACACAAAGCCAATATTATGCAAAAGACTGATGGCCTTTTCCTCAAGgtccaccaatacttacaaatgcctagaaatttttggtctcaaattttattcatgaattttattattaatgctttttgttattatttctag

Basic information

species Glycine max
transcript GLYMA13G20790.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G20790.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os01g16900.2 (Oryza sativa), 5'ss of exon 3
TGAGTATGCTTTTCACTATGCCAAGGCTCATGGAAGAGAGAGGGTTTCTGCCATACACAAAGCCAATATTATGCAAAAGACTGATGGCCTTTTCCTCAAGgtcc-------accaatacttacaaatgcctagaaatttttggtctcaaattttattcatgaattttattatta---atgctttttgttattatttctag
 ||||||||||| |||||||||||| |  ||||  | |||||||| ||||| |||||||| |||||||| |||   ||||| ||||| |||||||||||||||        |||  | | | | ||      | ||| | |   || || |  |||   ||     |  | ||     || | |||||| ||| ||  ||
AGAGTATGCTTTCCACTATGCCAAGACCAATGGCCGGGAGAGGGTCTCTGCGATACACAAGGCCAATATCATGAGGAAGACCGATGGTCTTTTCCTCAAGgtctgtttgctacctgttccttctaacttgatggaatgtatt-ccttaattcatatcactgggagctgatgttctgtttgttctttgtt-ttactttcag

upper sequence: GLYMA13G20790.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G404855_T01 (Zea mays), 5'ss of exon 4
TGAGTATGCTTTTCACTATGCCAAGGCTCATGGAAGAGAGAGGGTTTCTGCCATACACAAAGCCAATATTATGCAAAAGACTGATGGCCTTTTCCTCAAGgt-------ccaccaatacttacaaatgcctagaaatttttg---gtctcaaattttattcatgaattttattattaatgctttttgttattatttctag
 || ||||||||||| |||||||||||  ||||  | || ||||| ||||| || ||||| ||||||||||||   ||||| ||||| ||||||||||||||       | |||| |  || |   |   |    ||   ||    |||     ||| ||  |||| ||   | ||  || ||||| || | | || |||
AGAATATGCTTTTCATTATGCCAAGGCCAATGGCCGGGAAAGGGTCTCTGCGATTCACAAGGCCAATATTATGAGGAAGACAGATGGTCTTTTCCTCAAGgtttgtggtctaccattgtttccttctttttcatcatggatgcatttctttttctttctttctgaacttatgttttcttgatttttattgt-acttgtag

upper sequence: GLYMA13G20790.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G120857_T02 (Zea mays), 5'ss of exon 4
TGAGTATGCTTTTCACTATGCCAAGGCTCATGGAAGAGAGAGGGTTTCTGCCATACACAAAGCCAATATTATGCAAAAGACTGATGGCCTTTTCCTCAAGgtccaccaatacttacaaatgcctagaaatttttggtctcaaattttattcatgaattttatt-----attaatgctttttgttattatttctag---------
 ||||||||||| || |||||||||||  ||||  | || || || ||||| || ||||||||||||||||||   ||||| ||||| |||||||||||||||          ||| | ||  |    ||||||  ||    ||    ||| |    ||| ||     | | ||||||| | | ||| ||| | |         
AGAGTATGCTTTCCATTATGCCAAGGCCAATGGCCGGGAAAGAGTCTCTGCGATCCACAAAGCCAATATTATGAGGAAGACAGATGGTCTTTTCCTCAAGgtctgtgggc---taccattgtttccttatttttaatcatggatgcctttcgttttatttctttgagaacttatgctttct-tgattttttattgtacttgtag

upper sequence: GLYMA13G20790.1 (Glycine max), 5'ss of exon 3
lower sequence: AT5G03290.1 (Arabidopsis thaliana), 5'ss of exon 3
TGAGTATGCTTTTCACTATGCCAAGGCTCATGGAAGAGAGAGGGTTTCTGCCATACACAAAGCCAATATTATGCAAAAGACTGATGGCCTTTTCCTCAAGgtccaccaatacttacaaatgcctagaaatttttggtctcaa--attttattcatgaattttattattaatg--ctttttgttattatttctag------------------------------------
 ||||||||||||| |||||||||| |||||||||||||||| |||||||| || ||||||||||| |||||||| || ||||| || || || |||||||||  ||  |  ||| || | || || | || ||   |  |   ||   |   |||| | |||||  |  |    ||||| || |||  | | |                                    
AGAGTATGCTTTTCTCTATGCCAAGACTCATGGAAGAGAGAGAGTTTCTGCTATCCACAAAGCCAACATTATGCAGAAAACTGACGGTCTCTTTCTCAAGgtctgcccgt-tttataact-ccaagcatttcttatacggagggatcaaagcaatgattgttatttctgctagtttttttttttttacattttgttctgagaccatttttattttgcttccgtttttcag

upper sequence: GLYMA13G20790.1 (Glycine max), 5'ss of exon 3
lower sequence: AT3G09810.1 (Arabidopsis thaliana), 5'ss of exon 3
TGAGTATGCTTTTCACTATGCCAAGGCTCATGGAAGAGAGAGGGTTTCTGCCATACACAAAGCCAATATTATGCAAAAGACTGATGGCCTTTTCCTCAAGgtccaccaat------acttacaaatgcctagaaatttttggtctcaa-attttattcatgaattttattattaat--gctttttgttattatttctag-------------------------------------
 |||||||| ||||  ||||||||| |||| |||||  |||  |||||||| || ||||||||||| |||||||| || |||||||| ||||||||  |||||  |  ||      ||| | ||     ||| | || |   |      |   ||   ||   | |  |   | |   |||| || || |||    | |                                     
CGAGTATGCCTTTCTTTATGCCAAGACTCACGGAAGGAAGAAAGTTTCTGCAATTCACAAAGCCAACATTATGCAGAAAACTGATGGTCTTTTCCTGCAGgtcagctcattttggaactcagaatacattagcacttctcaattaggggaacatagcaatttttctagtctctcactggcttctttttcttaacctttgttctgagacaagtttttatttgcttcctgctttgcag

upper sequence: GLYMA13G20790.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv08s0040g01700.t01 (Vitis vinifera), 5'ss of exon 3
TGAGTATGCTTTTCACTATGCCAAGGCTCATGGAAGAGAGAGGGTTTCTGCCATACACAAAGCCAATATTATGCAAAAGACTGATGGCCTTTTCCTCAAGgtccaccaatacttacaaatgcctagaaatttttggtctcaaattttattcatgaattttattattaatgctttttgttattat-ttctag
||||||||| ||||||||||||||| | ||||||||||||||||| || || |||||||||||||| || ||||| |||||||||||||| || || |||||   |      |||||||||| ||    | | | |  | |   ||||   ||| ||  || ||    ||  |||| |  || | ||  ||
TGAGTATGCATTTCACTATGCCAAGACCCATGGAAGAGAGAGGGTATCCGCAATACACAAAGCCAACATCATGCAGAAGACTGATGGCCTCTTTCTTAAGgttgtctg----ttacaaatgcttaactttatgttgcataatcatttacctatgcatcctactaa-ggtgagttttctctttgtgttgcag

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|151406995|gb|EV276810.1|EV276810
EST:     CCATACACAAAGCCAATATTATGCAAAAGACTGATGGCCTTTTCCTCAAG                         TGTTGCCGTGAGGTTGCAGAGAAATATCCTGAGATAACTTATGAGGAAGTT
genomic: CCATACACAAAGCCAATATTATGCAAAAGACTGATGGCCTTTTCCTCAAGgtccaccaat ... ttatttctagTGTTGCCGTGAGGTTGCAGAGAAATATCCTGAGATAACTTATGAGGAAGTT
EST: gi|21677612|gb|BQ629963.1|BQ629963
EST:     CCATACACAAAGCCAATATTATGCAAAAGACTGATGGCCTTTTCCTCAAG                         TGTTGCCGTGAGGTTGCAGAGAAATATCCTGAGATAACTTATGAGGAAGTT
genomic: CCATACACAAAGCCAATATTATGCAAAAGACTGATGGCCTTTTCCTCAAGgtccaccaat ... ttatttctagTGTTGCCGTGAGGTTGCAGAGAAATATCCTGAGATAACTTATGAGGAAGTT
EST: gi|254321137|gb|GR827586.1|GR827586
EST:     CAAAGCCCAATATTATGCAAAAGACTGATGGCCTTTTCCTCCAAG                         TGTTGCCGTGAGGTTGCAGAGAAATATCCTGAGATAACTTATGAGGAAGT
genomic: CAAAG-CCAATATTATGCAAAAGACTGATGGCCTTTTCCT-CAAGgtccaccaat ... ttatttctagTGTTGCCGTGAGGTTGCAGAGAAATATCCTGAGATAACTTATGAGGAAGT
EST: gi|7924579|gb|AW830605.1|AW830605
EST:     CCATACACAAAGCCAATATTATGCAAAAGACTGATGGCCTTTTCCTCAAG                         TGTTGCCGTGAGGTTGCAGAGAAATATCCTGAGATAACTTATGAGGAAGTT
genomic: CCATACACAAAGCCAATATTATGCAAAAGACTGATGGCCTTTTCCTCAAGgtccaccaat ... ttatttctagTGTTGCCGTGAGGTTGCAGAGAAATATCCTGAGATAACTTATGAGGAAGTT