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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGTGGTCACTGCAAGCATCTTGCTCCGgttagtagtacacctcagtattttgcaaagttgcaaaataatgcattgtcatttttctattttgtctaaactcaaacttgcacttgttttag

Basic information

species Oryza sativa
transcript LOC_Os05g06430.2
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g06430.1 (Oryza sativa), 5'ss of exon 6
lower sequence: AC199571.3_FGT004 (Zea mays), 5'ss of exon 3
GTGTGGTCACTGCAAGCATCTTGCTCCGgttagtagtacacctcagtattttgcaaagttgcaaaataatgcattgtcatttttctattttgtctaaactcaaacttgcacttgt-tttag
||||||||||||||||||||||||||||||||||||   |      ||  ||| ||| || |||| || ||||  |   | ||  | |||| | |  |||  ||| || |||||  |||||
GTGTGGTCACTGCAAGCATCTTGCTCCGgttagtagagtat-----tagcttgaaaatttccaaattattgca--gcggtcttcattttttttgtggact-gaacatgtacttgaatttag

upper sequence: LOC_Os05g06430.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G159369_T01 (Zea mays), 5'ss of exon 6
GTGTGGTCACTGCAAGCATCTTGCTCCGgttagtagtacacctcagtattttgcaaagttgcaaaataatgcattgtcatttttctattttgtctaaactcaaacttgcacttgt-tttag
||||||||||||||||||||||||||||||||||||   |      ||  ||| ||| || |||| || ||||  |   | ||  | |||| | |  |||  ||| || ||||   |||||
GTGTGGTCACTGCAAGCATCTTGCTCCGgttagtagagtat-----tagcttgaaaatttccaaattattgca--gcggtcttcattttttttgtggact-gaacatgtacttaaatttag

upper sequence: LOC_Os05g06430.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G170845_T01 (Zea mays), 5'ss of exon 2
GTGTGGTCACTGCAAGCATCTTGCTCCGgttagtagtacacctcagtattttgcaaagttgcaaaataatgcattgtcatttttctattttgtctaaactcaaacttgcacttgt-tttag
||||||||||| ||||||||||||||||||||||||   |      ||  ||| ||| || |||| || ||||  |    | |||  |||| | |  |||  ||| || |||||  |||||
GTGTGGTCACTACAAGCATCTTGCTCCGgttagtagagtat-----tagcttgaaaatttccaaattattgcagcgg---tcttcatttttttgtggact-gaacatgtacttgaatttag

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|58662435|gb|CK051121.1|CK051121
EST:     GTGCGGTCACTGCAAGCATCTTGCTCCG                         ATTTATGAGAAGCTAGCTTCT
genomic: GTGTGGTCACTGCAAGCATCTTGCTCCGgttagtagta ... cttgttttagATTTATGAGAAGCTAGCTTCT
EST: gi|58684543|gb|CK073230.1|CK073230
EST:     GTGCGGTCACTGCAAGCATCTTGCTCCG                         ATTTATGAGAAGCTAGCTTCTGTTTATAAGCAAGATGAGGG
genomic: GTGTGGTCACTGCAAGCATCTTGCTCCGgttagtagta ... cttgttttagATTTATGAGAAGCTAGCTTCTGTTTATAAGCAAGATGAGGG
EST: gi|27577315|gb|CB000010.1|CB000010
EST:     GTGTGGTCACTGCAAGCATCTTGCTCCG                         ATTTATGAGAAGCTAGCTTCTGTTTATAAGCAAGATGAGGGTGTTGTTATT
genomic: GTGTGGTCACTGCAAGCATCTTGCTCCGgttagtagta ... cttgttttagATTTATGAGAAGCTAGCTTCTGTTTATAAGCAAGATGAGGGTGTTGTTATT
EST: gi|58653948|gb|CK042628.1|CK042628
EST:     GTGCGGTCACTGCAAGCATCTTGCTCCG                         ATTGAGTGAGAAGCTAGCTTCTGTTTATAAGCAAGATGAGGGTGTTGTTAT
genomic: GTGTGGTCACTGCAAGCATCTTGCTCCGgttagtagta ... cttgttttagATTTA-TGAGAAGCTAGCTTCTGTTTATAAGCAAGATGAGGGTGTTGTTAT
EST: gi|58659841|gb|CK048521.1|CK048521
EST:     GTGCGGTCACTGCAAGCATCTTGCTCCG                         ATTTATGAGAAGCTAGCTTCTGTTTATAAGCAAGATGAGGGTGTTGTTATT
genomic: GTGTGGTCACTGCAAGCATCTTGCTCCGgttagtagta ... cttgttttagATTTATGAGAAGCTAGCTTCTGTTTATAAGCAAGATGAGGGTGTTGTTATT
EST: gi|58690891|gb|CK079578.1|CK079578
EST:     GTGCGGTCACTGCAAGCATCTTGCTCCG                         ATTTATGAGAAGCTAGCTTCTGTTTATAAGCAAGATGAGGGTGTTGTTATT
genomic: GTGTGGTCACTGCAAGCATCTTGCTCCGgttagtagta ... cttgttttagATTTATGAGAAGCTAGCTTCTGTTTATAAGCAAGATGAGGGTGTTGTTATT
EST: gi|12622813|gb|AU173026.1|AU173026
EST:     GTGTGGTCACTGCAAGCATCTTGCTCCG                         ATTTATGAGAAGCTAGCTTCTGTTTATAAGCAAGATGAGGGTGTTGTTATT
genomic: GTGTGGTCACTGCAAGCATCTTGCTCCGgttagtagta ... cttgttttagATTTATGAGAAGCTAGCTTCTGTTTATAAGCAAGATGAGGGTGTTGTTATT
EST: gi|27577494|gb|CB000189.1|CB000189
EST:     GTGTGGTCACTGCAAGCATCTTGCTCCG                         ATTTATGAGAAGCTAGCTTCTGTTTATAAGCAAGATGAGGGTGTTGTTATT
genomic: GTGTGGTCACTGCAAGCATCTTGCTCCGgttagtagta ... cttgttttagATTTATGAGAAGCTAGCTTCTGTTTATAAGCAAGATGAGGGTGTTGTTATT
EST: gi|58675064|gb|CK063751.1|CK063751
EST:     GTGCGGTCACTGCAAGCATCTTGCTCCG                         ATTTATGAGAAGCTAGCTTCTGTTTATAAGCAAGATGAGGGTGTTGTTATT
genomic: GTGTGGTCACTGCAAGCATCTTGCTCCGgttagtagta ... cttgttttagATTTATGAGAAGCTAGCTTCTGTTTATAAGCAAGATGAGGGTGTTGTTATT