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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCACTAGGAGCTGCAAAGGGTCTTGCTTTTCTTCACGAGGAAGCTGAACGACCAGTAATATATAGGGATTTCAAAACTTCCAATATACTATTGGATGCAgtaagtgccaaattttaaattattaccatttttcttttcattccttgatttgatttatatattattataactattcag

Basic information

species Glycine max
transcript GLYMA18G16300.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G16300.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os01g40590.1 (Oryza sativa), 5'ss of exon 4
TGCACTAGGAGCTGCAAAGGGTCTTGCTTTTCTTCACGAGGAAGCTGAACGACCAGTAATATATAGGGATTTCAAAACTTCCAATATACTATTGGATGCAgtaagtg-ccaaattttaaattattaccatttttcttttcattccttgatttg----atttatatattattataactattcag------
 ||||| || ||||| ||||| |||||||||||||| || ||||||||| | ||||| || ||| |||||||||||||||| ||||| || || || || ||| |   |||  ||| | | |   | ||| ||     |  |   ||   |||    |||   |||||  | ||| ||||||       
AGCACTTGGTGCTGCTAAGGGCCTTGCTTTTCTTCATGAAGAAGCTGAAAGGCCAGTTATCTATCGGGATTTCAAAACTTCAAATATTCTTTTAGACGCGgtatgcaaccatgtttgagaatcaaaacatattagaaatgttcatttagattgtaacattctcatatttct-taaatattcattttcag

upper sequence: GLYMA18G16300.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os09g19700.1 (Oryza sativa), 5'ss of exon 4
TGCACTAGGAGCTGCAAAGGGTCTTGCTTTTCTTCACGAGGAAGCTGAACGACCAGTAATATATAGGGATTTCAAAACTTCCAATATACTATTGGATGCAgtaagtgccaaatt-ttaaatt--attac-catttttcttttcat--tccttgatttga---tttatatattattataactattcag
||| || ||||| ||||||||||||||||| ||||| || ||||| ||| ||||||| || ||  | ||||| ||||| || ||||||||  | ||||| ||||||   || |  || ||||  |||||  |||   |    ||   | |     |||    ||| ||||||||  ||    | |||
TGCTCTTGGAGCAGCAAAGGGTCTTGCTTTCCTTCATGAAGAAGCAGAAAGACCAGTTATTTACCGTGATTTTAAAACATCTAATATACTGCTAGATGCTgtaagttttaagtccttgaattggattacgtattgcacaccacacgattcacatcttgtaattttgtatattatgctactcttgcag

upper sequence: GLYMA18G16300.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G028037_T02 (Zea mays), 5'ss of exon 4
TGCACTAGGAGCTGCAAAGGGTCTTGCTTTTCTTCACGAGGAAGCTGAACGACCAGTAATATATAGGGATTTCAAAACTTCCAATATACTATTGGATGCAgtaagtgccaaattttaaattattaccatttttcttttcattccttgatttgatttatatattattataactattcag
||| || || ||||| || || || ||||||||||| || ||||||||| |||||||||| ||| |||| |||||||| |||||||| || || ||||| |||||   | |  || ||||  | |  || ||  ||   |    |  |||||  | | ||||| || | |        
TGCTCTTGGTGCTGCGAAAGGCCTCGCTTTTCTTCATGAAGAAGCTGAAAGACCAGTAATCTATCGGGACTTCAAAACCTCCAATATTCTTTTAGATGCGgtaagcaactatattgaaatgttaaaaatattcattcatacaaatgtatttg-ctaacatatttttttcag-------

upper sequence: GLYMA18G16300.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G150806_T01 (Zea mays), 5'ss of exon 4
TGCACTAGGAGCTGCAAAGGGTCTTGCTTTTCTTCACGAGGAAGCTGAACGACCAGTAATATATAGGGATTTCAAAACTTCCAATATACTATTGGATGCAgtaagtgccaaattttaaattat-taccatttttcttttcattccttgat--ttgatttatatattattataactattcag
|||||| ||||| ||||||||||| ||||| ||||| || ||||| ||| | ||||| || ||| | ||||| ||||| || ||||||||| ||||||| ||||||   |    |   |||||  |   | | |||  | |||     |   |||  |  ||| ||||  |   | |  ||
TGCACTGGGAGCAGCAAAGGGTCTGGCTTTCCTTCATGAAGAAGCAGAAAGTCCAGTCATTTATCGTGATTTTAAAACATCTAATATACTACTGGATGCGgtaagt-taatgaataggattatgcagtgtgtgtctcattatttacatactgttgcatcttatgttatattgcttgtatag

upper sequence: GLYMA18G16300.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G132184_T03 (Zea mays), 5'ss of exon 4
TGCACTAGGAGCTGCAAAGGGTCTTGCTTTTCTTCACGAGGAAGCTGAACGACCAGTAATATATAGGGATTTCAAAACTTCCAATATACTATTGGATGCAgtaagtgccaaattttaaattat-taccatttttcttttcattccttgatt--tgatttatatattattataactattcag
|||||| ||||| ||||||||||| ||||| ||||| || ||||| ||| ||||||| || ||| | ||||| ||||| || ||||||||  ||||||| ||||||   |    |   |||||  |   | |   |  | ||   |  | |  |   | |||| ||||  |   | | |||
TGCACTCGGAGCAGCAAAGGGTCTGGCTTTCCTTCATGAAGAAGCAGAAAGACCAGTCATTTATCGCGATTTTAAAACATCTAATATACTGCTGGATGCGgtaagt-taatgaataggattatgcagtgtgtgcttcatgatctatatactgctacatcatatgttatattgcttgtacag

upper sequence: GLYMA18G16300.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv01s0026g01620.t01 (Vitis vinifera), 5'ss of exon 4
TGCACTAGGAGCTGCAAAGGGTCTTGCTTTTCTTCACGAGGAAGCTGAACGACCAGTAATATATAGGGATTTCAAAACTTCCAATATACTATTGGATGCAgtaagtgccaaa--ttttaaattattaccatttttcttttcattccttgatttgatttatatattattataactattcag
||||||||| ||||| ||||||||||| |||||||| |||||||| ||| | ||||| |||||| | ||||| || || ||||| || ||||||||||||||||||   |||   | | |   |||  | ||| |||  | ||  | |    |  |||||||   ||  ||    |||||
TGCACTAGGTGCTGCTAAGGGTCTTGCATTTCTTCATGAGGAAGCAGAAAGGCCAGTTATATATCGTGATTTTAAGACCTCCAACATCCTATTGGATGCAgtaagtaataaaaactgtgataaattcacgtttgtctcctaatatcattccatcttttatatgacatccta---tttcag

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|192329814|gb|FK023010.1|FK023010
EST:     GACCAGTAATATATAGGGATTTCAAAACTTCCAATATACTATTGGATGCA                         GAATACAATGCTAAGCTCTCAGACTTTGGACTTGCAAAAGATGGTCCAGAG
genomic: GACCAGTAATATATAGGGATTTCAAAACTTCCAATATACTATTGGATGCAgtaagtgcca ... aactattcagGAATACAATGCTAAGCTCTCAGACTTTGGACTTGCAAAAGATGGTCCAGAG
EST: gi|22523057|gb|BU081868.1|BU081868
EST:     GACCAGTAATATATAGGGATTTCAAAACTTCCAATATACTATTGGATGCA                         GAATACAATGCTAAGCTCTCAGACTTTGGACTTGCAAAAGATGGTCCAGAG
genomic: GACCAGTAATATATAGGGATTTCAAAACTTCCAATATACTATTGGATGCAgtaagtgcca ... aactattcagGAATACAATGCTAAGCTCTCAGACTTTGGACTTGCAAAAGATGGTCCAGAG