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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGTGGGACATTAATATGGATTCAGGCCCCGTTGCAACTTTCCAGGTTCATGAGTATTTAAGACCCAAGgttagattcctgtgtttagataagtgatgaattatgaatttcattctactgctttgtcgagttataactggttatattttatgtttgaacatgccag

Basic information

species Glycine max
transcript GLYMA13G42800.1
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G42800.1 (Glycine max), 5'ss of exon 10
lower sequence: LOC_Os02g13110.2 (Oryza sativa), 5'ss of exon 10
TTGTGGGACATTAATATGGATTCAGGCCCCGTTGCAACTTTCCAGGTTCATGAGTATTTAAGACCCAAGgttagattcctgtgtttagataagtgatgaattatgaatttcattctactgctttgtcgagttataactggttatattttatgtttgaacatgccag
|| ||||| || || |||||||||||||| |||||||||||||| |||||||| ||||||||||| ||||| |  || |      |  || |  |   || | | ||| | |    |   |    || |   ||  |  |||| |||| || |||           
TTATGGGATATAAACATGGATTCAGGCCCAGTTGCAACTTTCCAAGTTCATGAATATTTAAGACCTAAGgtgaagtttcgtaacctgaatgatggcaaaaatgtcaatgttaagacatgtcacaatcta---atgccgtgtta-atttcatcttttgcag------

upper sequence: GLYMA13G42800.1 (Glycine max), 5'ss of exon 10
lower sequence: LOC_Os01g41630.1 (Oryza sativa), 5'ss of exon 10
TTGTGGGACATTAATATGGATTCAGGCCCCGTTGCAACTTTCCAGGTTCATGAGTATTTAAGACCCAAGgttagatt-cctgtgtttagataagtgatgaat-----tatgaatttcat------tctactgctttgtcgagttataactggtt-atattttatgtttgaacatgccag
 | ||||| ||||| ||| | || || || |||||||| ||||||||||||||||||||||| |||||||| |   |     |||| |||| | | ||  ||     | |||   ||||      |  |||  ||    |   ||   ||| || || | ||   |    | |   |||
CTTTGGGATATTAACATGAACTCTGGTCCAGTTGCAACATTCCAGGTTCATGAGTATTTAAGGCCCAAGgtaattctgtacatgttaagatgaataatccatacttctttgaggatcatgaacaataaactatttcactggagtaactctgattcatgtattgcttcctgaaactgcag

upper sequence: GLYMA13G42800.1 (Glycine max), 5'ss of exon 10
lower sequence: LOC_Os06g36770.2 (Oryza sativa), 5'ss of exon 10
TTGTGGGACATTAATATGGATTCAGGCCCCGTTGCAACTTTCCAGGTTCATGAGTATTTAAGACCCAAGgttagattcctgtgtttagataagtgatgaattatgaatttcattctactgctttgtcgagttataa-ctggttatattttatgtttgaacatgccag
 | |||||  | || ||||||||||| || ||| |||| ||||||||||||||  ||||||| |||||||| ||| |       | |    | |||  ||  |  |     ||  |           ||   |||| || | | || | ||  ||| |         
CTATGGGATCTAAACATGGATTCAGGTCCTGTTTCAACCTTCCAGGTTCATGAACATTTAAGGCCCAAGgtgagactttg----tcaaccgaatgactaaaaagaagccatatgatg-------actgatacataatctagctgtactctaattttcag--------

upper sequence: GLYMA13G42800.1 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM2G069631_T02 (Zea mays), 5'ss of exon 10
TTGTGGGACATTAATATGGATTCAGGCCCCGTTGCAACTTTCCAGGTTCATGAGTATTTAAGACCCAAGgttagattcctg--tgtttagataagtgatgaattatgaatttcattctactgctttgtcgagttataactggttatattttatgtttgaacatgccag
||||||||  | || |||||||||||||| ||||||||||| ||||||||||| || ||| | || ||||| |  || ||     | |  || ||  |||||  |    | ||| | | ||||| |     | ||     ||| | || || ||              
TTGTGGGATCTAAACATGGATTCAGGCCCAGTTGCAACTTTTCAGGTTCATGAATACTTACGTCCTAAGgtgaattttcttatcatctgaatgag-aatgaaagagccgtatcaatat-ctgctgtaatctgatagcgtgggtaacatcttttgcag-----------

upper sequence: GLYMA13G42800.1 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM2G142334_T02 (Zea mays), 5'ss of exon 10
TTGTGGGACATTAATATGGATTCAGGCCCCGTTGCAACTTTCCAGGTTCATGAGTATTTAAGACCCAAGgttagat-tcctgtgtttagataagtgatgaattatgaatttcattctactgctttgtcgagttataactggt-tatattttatgtttgaacatgccag--------
 | |||||  |||| ||| |||| || || |||||||| |||||||||||||||||| |||| || ||||| |  | | |  |||| |||||| | ||  ||  |   ||     | |    |    |   || |  ||||   | |  | ||   ||       ||         
CTTTGGGATGTTAAGATGAATTCTGGTCCTGTTGCAACATTCCAGGTTCATGAGTATCTAAGGCCTAAGgtaatttcttccatgttaagataaataattgatggttctttgtgcacaatgaatagcacatatttttgctggaacaaacctgatccatgtgttactcaaaactgcag

upper sequence: GLYMA13G42800.1 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM2G164185_T02 (Zea mays), 5'ss of exon 10
TTGTGGGACATTAATATGGATTCAGGCCCCGTTGCAACTTTCCAGGTTCATGAGTATTTAAGACCCAAGgttagat-tcctgtgtt-----tagataagtgatga---attatgaat--ttcat--tctactgctttgtcgagttataactggttatattttatgtttgaacatgccag
 | |||||  |||| ||| |||| || || |||||||| |||||||||||||||||| |||| || ||||| |  | | |  ||||     || |||| ||||||    || || |   | |||     |    ||||  |      ||||| |   || |  |  ||| |  |||   
CTTTGGGATGTTAAGATGAATTCCGGTCCAGTTGCAACATTCCAGGTTCATGAGTATCTAAGGCCTAAGgtaatttcttccatgttaagagtaaataattgatgattctttgtggacaatgcataacacatatttttgctggagccaaactgatc-catgtgttacttggaactgcag-

upper sequence: GLYMA13G42800.1 (Glycine max), 5'ss of exon 10
lower sequence: AT1G51690.3 (Arabidopsis thaliana), 5'ss of exon 12
TTGTGGGACATTAATATGGATTCAGGCCCCGTTGCAACTTTCCAGGTTCATGAGTATTTAAGACCCAAGgttagattcctg-tgtttagataagtgatgaattatgaatttcattctactgctttgtcgagttataactggttatattttatgtttgaacatgccag
|| |||||||| || |||||  |||| || || |||||||||||||||||||| ||||| | ||| ||||| || |||||  | ||| ||  || |||  |||  |     |    |  |||||||  || |  ||     ||     | || ||            
TTATGGGACATCAACATGGACGCAGGTCCAGTAGCAACTTTCCAGGTTCATGAATATTTGAAACCAAAGgtcagtttcctaatattttga-gagagatacatttgg-----cgagttggtgctttgctgaatggtattccctttgtggtcattttcag---------

upper sequence: GLYMA13G42800.1 (Glycine max), 5'ss of exon 10
lower sequence: Vv09s0002g02470.t01 (Vitis vinifera), 5'ss of exon 10
TTGTGGGACATTAATATGGATTCAGGCCCCGTTGCAACTTTCCAGGTTCATGAGTATTTAAGACCCAAGgttagattcctgtgtttagataagtgatgaatt--atgaatttcattctactgctttgtcgagttataactggttatattttatgtttgaacatgccag
|| ||||||||||||||||| |||||||| ||| |||| |||||||||||||| ||||||||||| ||||| || || || |  | ||| ||||  |  |    |  | ||  |   |||| || || |  | || |  |     | | ||   ||    |   ||||
TTATGGGACATTAATATGGACTCAGGCCCAGTTTCAACCTTCCAGGTTCATGAATATTTAAGACCTAAGgtgagcttgctttcctcagaaaagtcttacacagaacaacttctacattact-ctctg-catgcta-attttaccctctgtttctttccttctctccag

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|18730643|gb|BM525996.1|BM525996
EST:     ATTCAGGCCCCGTTGCAACTTTCCAGGTTCATGAGTATTTAAGACCCAAG                         CTTTGCGATTTATATGAAAATGACTCAATCTTTGATAAGTTCGAATGTTGT
genomic: ATTCAGGCCCCGTTGCAACTTTCCAGGTTCATGAGTATTTAAGACCCAAGgttagattcc ... aacatgccagCTTTGCGATTTATATGAAAATGACTCAATCTTTGATAAGTTCGAATGTTGT
EST: gi|5770902|gb|AI974076.1|AI974076
EST:     ATTCAGGCCCCGTTGCAACTTTCCAGGTTCATGAGTATTTAAGACCCAAG                         CTTTGCGATTTATATGAAAATGACTCAATCTTTGATAAGTTCGAATGTTGT
genomic: ATTCAGGCCCCGTTGCAACTTTCCAGGTTCATGAGTATTTAAGACCCAAGgttagattcc ... aacatgccagCTTTGCGATTTATATGAAAATGACTCAATCTTTGATAAGTTCGAATGTTGT