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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGGAAAGTTCTTGGAACTTAGCTTTTCAAACCATGCAACTGCAAATCGAGTTGCAACCTGTGGACATTCTTTGCAGAGGGATTGCCTCCGTTTCTATGGgtaaatcatccagacaaggaatcaccaatcaattttttgttatgtaatttgtgttggttatcaatacttgaaaggtaacaaacaaccttatgtgtaacag

Basic information

species Glycine max
transcript GLYMA20G01680.1
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G01680.1 (Glycine max), 5'ss of exon 10
lower sequence: LOC_Os08g33200.1 (Oryza sativa), 5'ss of exon 6
TTGGAAAGTTCTTGGAACTTAGCTTTTCAAACCATGCAACTGCAAATCGAGTTGCAACCTGTGGACATTCTTTGCAGAGGGATTGCCTCCGTTTCTATGGgtaaatcatccagacaaggaatcaccaatcaattttttgttatgtaatttgtgttggttatcaatacttgaaaggtaacaaacaaccttatgtgtaacag
|||| ||||||||||| || ||||||||||||||| | ||||| || ||||||||||  |||||||||||| | ||||| || ||||| ||||||||||||||  | |||      |    |||||||| ||  ||     ||    |   |||   ||     ||  ||  |  || | |                   
TTGGGAAGTTCTTGGAGCTAAGCTTTTCAAACCATACTACTGCTAACCGAGTTGCAAGTTGTGGACATTCTCTCCAGAGAGACTGCCTTCGTTTCTATGGgtatgt-atctgctgtatccttcaccaattaacattgctcaatcct-tcaatgtgatttcaatttatctgctaaatatccag------------------

upper sequence: GLYMA20G01680.1 (Glycine max), 5'ss of exon 10
lower sequence: LOC_Os06g14750.1 (Oryza sativa), 5'ss of exon 6
TTGGAAAGTTCTTGGAACTTAGCTTTTCAAACCATGCAACTGCAAATCGAGTTGCAACCTGTGGACATTCTTTGCAGAGGGATTGCCTCCGTTTCTATGGgtaaatcatccagacaaggaatcaccaatcaattttttgttatgtaatttgtgttggttatcaatacttgaaaggtaacaaacaaccttatgtgtaacag
|||| ||||| ||||||||||||||||| || ||  |||| || || || |||||  |||||||||||||  | |||||||| ||||| ||||| ||||||||  | ||     |  |   | | |  | | |        ||||||    ||||  ||||    |  |  |                            
TTGGGAAGTTTTTGGAACTTAGCTTTTCGAATCACACAACGGCCAACCGGGTTGCCTCCTGTGGACATTCCCTTCAGAGGGACTGCCTTCGTTTTTATGGgtatgtgattatttcttgtggtaaact-tgagtcaaggccaatgtaaaaaatgtta-ttattttcatctacag---------------------------

upper sequence: GLYMA20G01680.1 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM2G092595_T01 (Zea mays), 5'ss of exon 3
TTGGAAAGTTCTTGGAACTTAGCTTTTCAAACCATGCAACTGCAAATCGAGTTGCAACCTGTGGACATTCTTTGCAGAGGGATTGCCTCCGTTTCTATGGgtaaatcatccagacaaggaatcaccaatcaattttttgttatgtaatttgtgttggttatcaatacttgaaaggtaacaaacaaccttatgtgtaacag
|||| || ||| | || || || || |||||||||||  |||| || |||||||||| ||||||||||||  | |||||||| ||||| ||||| ||||||||  |  ||      |    | ||  |  |   | ||||| |||  |    ||  | | |||| | || |||   |||   ||                
TTGGGAAATTCCTAGAGCTAAGTTTCTCAAACCATGCTTCTGCCAACCGAGTTGCAAGCTGTGGACATTCACTCCAGAGGGACTGCCTTCGTTTTTATGGgtacgt-gtctgctatattctttac--agtatcatattgttctgtgctcca-gtgagatctcaacaattcaaatacaactc-cag---------------

upper sequence: GLYMA20G01680.1 (Glycine max), 5'ss of exon 10
lower sequence: AT1G71010.1 (Arabidopsis thaliana), 5'ss of exon 6
TTGGAAAGTTCTTGGAACTTAGCTTTTCAAACCATGCAACTGCAAATCGAGTTGCAACCTGTGGACATTCTTTGCAGAGGGATTGCCTCCGTTTCTATGGgtaaatcatccagacaaggaatcaccaatcaattttttgttatgtaatttgtgttggttatcaatacttgaaaggtaacaaacaaccttatgtgtaacag
||||||||||  |||||||||||||||| || ||||||||||| ||||| |||||| | || || |||||  | || || || ||||| || |||||||||||||     ||| |     |  | || ||   ||   ||||| | | |  ||||        | |||   ||  | |  |      || |         
TTGGAAAGTTTCTGGAACTTAGCTTTTCGAATCATGCAACTGCGAATCGTGTTGCATCTTGCGGTCATTCGCTTCAAAGAGACTGCCTTCGATTCTATGGgtaaac---gcaggctgtataatatcattct-cttacagttatctcaatgctgtt--------acactaataatattatgatttgttttgtag-------

upper sequence: GLYMA20G01680.1 (Glycine max), 5'ss of exon 10
lower sequence: Vv01s0011g04790.t01 (Vitis vinifera), 5'ss of exon 6
TTGGAAAGTTCTTGGAACTTAGCTTTTCAAACCATGCAACTGCAAATCGAGTTGCAACCTGTGGACATTCTTTGCAGAGGGATTGCCTCCGTTTCTATGGgtaaatcatccagacaaggaatcaccaatcaattttttgttatgtaatttgtgttggttatcaatacttgaaaggtaacaaacaaccttatgtgtaacag
|||||||||||||||| |||||||||||||||||||||||||| ||||| |||||||| ||||| |||||||| || ||||| |||||||||||||||||||| ||      | ||   |||    |||    | |   || | |||||   ||||| | | | ||     |  ||   || |   | | | | | ||||
TTGGAAAGTTCTTGGAGCTTAGCTTTTCAAACCATGCAACTGCTAATCGTGTTGCAACTTGTGGTCATTCTTTACAAAGGGACTGCCTCCGTTTCTATGGgtatat------gccattaaatttgtaattcgatgtcaattttctaatt---gttgggtgtgattatgatgattgttggaagctttcatttttcttacag

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|193514126|gb|FK466984.1|FK466984
EST:     GTTGCAACCTGTGGACATTCTTTGCAGAGGGATTGCCTCCGTTTCTATGG                         GTTTGGGAGCATGGTTTGTCTTTCTTCCGGTATTCCCCTATTGATATTCTT
genomic: GTTGCAACCTGTGGACATTCTTTGCAGAGGGATTGCCTCCGTTTCTATGGgtaaatcatc ... tgtgtaacagGTTTGGGAGCATGGTT-G-CTTTCTTCCGGTATTCCCCTATTGATATTCTT
EST: gi|207797957|gb|GD768521.1|GD768521
EST:     TCCGTTTCTAGTGG                         GTTTGGGAGCATGGTTGCTTTCTTCCGGTATTCCCCTATTGATATTCTTT
genomic: TCCGTTTCTA-TGGgtaaatcatc ... tgtgtaacagGTTTGGGAGCATGGTTGCTTTCTTCCGGTATTCCCCTATTGATATTCTTT