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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGACGACTGGGTTTGCCCCAGCTGCCAGAACGTCAACTTCGCCTTCCGCACCACCTGCAACATGCGCAATTGCAACCAATCCAGGCCCACCGACTATACGgtacatgtgattgccaccgatgcgcgctcatgtggttgattagttccgctcatcgtgatttttgcatttacctagtcgtgctgttgcctcctctccagaag

Basic information

species Oryza sativa
transcript LOC_Os08g41010.4
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g41010.4 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G107106_T07 (Zea mays), 5'ss of exon 3
GGACGACTGGGTTTGCCCCAGCTGCCAGAACGTCAACTTCGCCTTCCGCACCACCTGCAACATGCGCAATTGCAACCAATCCAGGCCCACCGACTATACGgtacatgtgattgccaccgatgcgcgctcatgtggttgattagttccgctcatcgtgatttttgcatttacctagtcgtgctgttgcctcctctccagaag-------------------------------
||||||||||||||||||||||||| |||||||||||||||||||||||||||| |||||||||||||  |||||||| ||||||||  | ||  | |||||||||     |    ||         || ||  || ||||  ||  |||  |||   |  | |    |  ||    || || |||| | | | |  | |                                
GGACGACTGGGTTTGCCCCAGCTGCAAGAACGTCAACTTCGCCTTCCGCACCACTTGCAACATGCGCAGCTGCAACCAGTCCAGGCCAGCAGATCACACGgtacataatggttttgcctcactttattcttgctgtagattgttt--gcttgtcgctttcatggagcgtgtctgtgggtacttttgcttgcccgcttgcatttatgtcgtgctgctgttgcttgccattcag

upper sequence: LOC_Os08g41010.4 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM5G868981_T01 (Zea mays), 5'ss of exon 2
GGACGACTGGGTTTGCCCCAGCTGCCAGAACGTCAACTTCGCCTTCCGCACCACCTGCAACATGCGCAATTGCAACCAATCCAGGCCCACCGACTATACGgtacatgtgattgccaccgatgcgcgctcatgtggttgattagttccgctcatcgtgatttttgcatttacctagtcgtgctgttgcctcctctccagaag----------------------------------
||||||||||||||||||||||||| |||||||||||||||||||||||||||| |||||||||||||  |||||||| ||||||||  | ||  | |||||||||     |    ||         || ||  || ||||  ||  |||  |||   |  | |    |  ||    || || |||| | | | |  | |                                   
GGACGACTGGGTTTGCCCCAGCTGCAAGAACGTCAACTTCGCCTTCCGCACCACTTGCAACATGCGCAGCTGCAACCAGTCCAGGCCAGCAGATCACACGgtacataatggttttgcctcactttattcttgctgtagattgttt--gcttgtcgctttcatggagcgtgtctgtgggtacttttgcttgcccgcttgcatttatgtcgtgctgctgttgcttgccattcagaag

upper sequence: LOC_Os08g41010.4 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G134770_T04 (Zea mays), 5'ss of exon 3
GGACGACTGGGTTTGCCCCAGCTGCCAGAACGTCAACTTCGCCTTCCGCACCACCTGCAACATGCGCAATTGCAACCAATCCAGGCCCACCGACTATACGgtacatg-tgatt------------gccaccgat-----gcgcgct------catgtggt-------tgattagttccgctcatcg--tgatt-tttgcatttacctagtcgtgctgttgcctcctctccagaag
||||||||||||||||||||||||| ||||||| ||||||||||| |||||||| |||||||||||||| |||||||| ||||||||  | ||  | |||||||||| || ||             |  | |||     ||  |||      |   | ||       || ||| ||| |||  | |  ||    ||||||||||||| ||  |||| |||| | || | ||||||
GGACGACTGGGTTTGCCCCAGCTGCAAGAACGTTAACTTCGCCTTTCGCACCACTTGCAACATGCGCAACTGCAACCAGTCCAGGCCAGCAGATCACACGgtacatgatggtttcacctcgctttactgcagattgttggcttgctgctttgcgcatagtgtacctgtggttacttctgcttgttgcttgcccgtttgcatttacctggtgctgctattgctttctgttcagaag

upper sequence: LOC_Os08g41010.4 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G134770_T03 (Zea mays), 5'ss of exon 3
GGACGACTGGGTTTGCCCCAGCTGCCAGAACGTCAACTTCGCCTTCCGCACCACCTGCAACATGCGCAATTGCAACCAATCCAGGCCCACCGACTATACGgtacatg-tgatt------------gccaccgat-----gcgcgct------catgtggt-------tgattagttccgctcatcg--tgatt-tttgcatttacctagtcgtgctgttgcctcctctccagaag
||||||||||||||||||||||||| ||||||| ||||||||||| |||||||| |||||||||||||| |||||||| ||||||||  | ||  | |||||||||| || ||             |  | |||     ||  |||      |   | ||       || ||| ||| |||  | |  ||    ||||||||||||| ||  |||| |||| | || | |||   
GGACGACTGGGTTTGCCCCAGCTGCAAGAACGTTAACTTCGCCTTTCGCACCACTTGCAACATGCGCAACTGCAACCAGTCCAGGCCAGCAGATCACACGgtacatgatggtttcacctcgctttactgcagattgttggcttgctgctttgcgcatagtgtacctgtggttacttctgcttgttgcttgcccgtttgcatttacctggtgctgctattgctttctgttcag---

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|58588238|gb|CF986546.1|CF986546
EST:     CCACCTGCAACATGCGCAATTGCAACCAATCCAGGCCCACCGACTATACG                         GATATGCAGAAACCTATGCAGACACCGCCGCCCCATTTCCCCATGTCAGGG
genomic: CCACCTGCAACATGCGCAATTGCAACCAATCCAGGCCCACCGACTATACGgtacatgtga ... tctccagaagGATATGCAGAAACCTATGCAGACACCGCCGCCCCATTTCCCCATGTCAGGG
EST: gi|88358394|gb|CI606903.1|CI606903
EST:     CCACCTGCAACATGCGCAATTGCAACCAATCCAGGCCCACCGACTATACG                         GATATGCAGAAACCTATGCAGACACCGCCGCCCCATTTCCCCATGTCAGGG
genomic: CCACCTGCAACATGCGCAATTGCAACCAATCCAGGCCCACCGACTATACGgtacatgtga ... tctccagaagGATATGCAGAAACCTATGCAGACACCGCCGCCCCATTTCCCCATGTCAGGG
EST: gi|58673635|gb|CK062321.1|CK062321
EST:     CCACCTGCAACATGCGCAATTGCAACCAATCCAGGCCCACCGACTATACG                         GATATGCAGAAACCTATGCAGACACCGCCGCCCCATTTCCCCATGTCAGGG
genomic: CCACCTGCAACATGCGCAATTGCAACCAATCCAGGCCCACCGACTATACGgtacatgtga ... tctccagaagGATATGCAGAAACCTATGCAGACACCGCCGCCCCATTTCCCCATGTCAGGG