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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGTAACCTGCAGCTTCAGGCCTATTTTCTGGTTCTTGATGATATAATGGATAACTCACAAACTCGACGAGGAAAACCCTGTTGGTTTAGGCTTCCCAAGgtttgtcaagtaggattaacttgtccacatagaaatgtccttgtgttactgtagattctcgagtgttgttaaaatgttatgattgtactccaactaaaca...

Basic information

species Oryza sativa
transcript LOC_Os01g50050.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g50050.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA09G01820.3 (Glycine max), 5'ss of exon 4
GAGTAACCTGCAGCTTCAGGCCTATTTTCTGGTTCTTGATGATATAATGGATAACTCACAAACTCGACGAGGAAAACCCTGTTGGTTTAGGCTTCCCAAGgtttgtcaagtaggattaacttgtccacatagaaatgtccttgtgttactgt--agattctcgagtgttgttaaaatgttatgattgtactccaactaaaca
             |||||||| |||||||| ||||||||||| || ||||||||||| || || || || ||  | || || ||||||||  | ||||||||||||  || |  || ||| ||| | ||| |   | || |  || | ||||   |||     | |  | |  || |  | | || ||              
-------------CTTCAGGCATATTTTCTTGTTCTTGATGACATTATGGATAACTCTCACACACGCCGCGGCCAGCCATGCTGGTTTAGAGTGCCCAAGgtttgt--agaaaaataaacatgtgc-cattgtgttatcttaatgctgctgttgggataaagtaattatctctaattactgt-atggtgtag----------

upper sequence: LOC_Os01g50050.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA15G12780.1 (Glycine max), 5'ss of exon 4
GAGTAACCTGCAGCTTCAGGCCTATTTTCTGGTTCTTGATGATATAATGGATAACTCACAAACTCGACGAGGAAAACCCTGTTGGTTTAGGCTTCCCAAGgtttgtcaagtaggattaacttgtccacatagaaatgtccttgtgttactgtagattctcgagtgttgttaaaatgttatgattgtactccaactaaaca
             |||||||| |||||||| ||||||||||| || ||||||||||| || || || || ||  | || || ||||||||  | ||||||||||||  || | || |||| ||| | |||     | || || || |||||| | |  |  ||   |  |     |||| | |  |  |  |        
-------------CTTCAGGCATATTTTCTTGTTCTTGATGACATTATGGATAACTCTCACACACGCCGTGGTCAGCCATGCTGGTTTAGAGTGCCCAAGgtttgt--agaaagaataacatgtgc-cattttgttatctttatgctactgttg-tgataaagcaattatctctagttacggt-atggtgtag-------

upper sequence: LOC_Os01g50050.2 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv19s0015g01010.t01 (Vitis vinifera), 5'ss of exon 4
GAGTAACCTGCAGCTTCAGGCCTATTTTCTGGTTCTTGATGATATAATGGATAACTCACAAACTCGACGAGGAAAACCCTGTTGGTTTAGGCTTCCCAAGgtttgtcaagtaggattaacttgtccacatagaaatgtccttgtgttactgtagattctcgagtgttgttaaaatgt--tatgattgtactccaactaaaca---
             ||||| || ||||| || || ||||||||||| ||||||||||| || || || |||||  |||| || ||||| ||| |||||||||  ||  |      | | ||   |         |  || |  |  |   || |  | |       ||| |||| ||   ||  |   | ||   | |   |    
-------------CTTCAAGCATATTTCCTTGTGCTTGATGATATTATGGATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAGg--tgcaagcctatagtgaccctttttttctttacagtgcaagcatgtttgcaattgcc---actttgataaagtgaagtactaactttcttagatttgtcttag

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|33381333|gb|CF196676.1|CF196676
EST:     ATAACTCACAAACTCGACGAGGAAAACCCTGTTGGTTTAGGCTTCCCAAG                         GTCGGCCTCATAGCTATAAATGATGGACTCGTCCTTCGCAGCCAAATTTCA
genomic: ATAACTCACAAACTCGACGAGGAAAACCCTGTTGGTTTAGGCTTCCCAAGgtttgtcaag ... ccttgagcagGTCGGCCTCATAGCTATAAATGATGGACTCGTCCTTCGCAGCCAAATTTCA