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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGACGACTGGGTTTGCCCCAGCTGCCAGAACGTCAACTTCGCCTTCCGCACCACCTGCAACATGCGCAATTGCAACCAATCCAGGCCCACCGACTATACGgtacatgtgattgccaccgatgcgcgctcatgtggttgattagttccgctcatcgtgatttttgcatttacctagtcgtgctgttgcctcctctccagaaggatatgcag

Basic information

species Oryza sativa
transcript LOC_Os08g41010.7
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g41010.7 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G107106_T07 (Zea mays), 5'ss of exon 3
GGACGACTGGGTTTGCCCCAGCTGCCAGAACGTCAACTTCGCCTTCCGCACCACCTGCAACATGCGCAATTGCAACCAATCCAGGCCCACCGACTATACGgtacatgtgattgccaccgatgcgcgctcatgtggttgattagttccgctcatcgtgatttttgcatttacctagtcgtgctgttgcctcctctccagaaggatatgcag-----------------------
||||||||||||||||||||||||| |||||||||||||||||||||||||||| |||||||||||||  |||||||| ||||||||  | ||  | |||||||||     |    ||         || ||  || ||||   |  |||  |||   |  | |    |  ||    || || |||| | | | |  | |   ||||  |                       
GGACGACTGGGTTTGCCCCAGCTGCAAGAACGTCAACTTCGCCTTCCGCACCACTTGCAACATGCGCAGCTGCAACCAGTCCAGGCCAGCAGATCACACGgtacataatggttttgcctcactttattcttgctgtagattg--tttgcttgtcgctttcatggagcgtgtctgtgggtacttttgcttgcccgcttgcatt-tatgtcgtgctgctgttgcttgccattcag

upper sequence: LOC_Os08g41010.7 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM5G868981_T01 (Zea mays), 5'ss of exon 2
GGACGACTGGGTTTGCCCCAGCTGCCAGAACGTCAACTTCGCCTTCCGCACCACCTGCAACATGCGCAATTGCAACCAATCCAGGCCCACCGACTATACGgtacatgtgattgccaccgatgcgcgctcatgtggttgattagttccgctcatcgtgatttttgcatttacctagtcgtgctgttgcctcctctccagaaggatatgcag--------------------------
||||||||||||||||||||||||| |||||||||||||||||||||||||||| |||||||||||||  |||||||| ||||||||  | ||  | |||||||||     |    ||         || ||  || ||||   |  |||  |||   |  | |    |  ||    || || |||| | | | |  | |   ||||  |                          
GGACGACTGGGTTTGCCCCAGCTGCAAGAACGTCAACTTCGCCTTCCGCACCACTTGCAACATGCGCAGCTGCAACCAGTCCAGGCCAGCAGATCACACGgtacataatggttttgcctcactttattcttgctgtagattg--tttgcttgtcgctttcatggagcgtgtctgtgggtacttttgcttgcccgcttgcatt-tatgtcgtgctgctgttgcttgccattcagaag

upper sequence: LOC_Os08g41010.7 (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-tttgcatttacctagtcgtgctgttgcctcctctccagaaggatatgcag
||||||||||||||||||||||||| ||||||| ||||||||||| |||||||| |||||||||||||| |||||||| ||||||||  | ||  | |||||||||| || ||             |  | |||     ||  |||      |   | ||       || ||| ||| |||  | |  ||    ||||||||||||| ||  |||| |||| | || | ||||||         
GGACGACTGGGTTTGCCCCAGCTGCAAGAACGTTAACTTCGCCTTTCGCACCACTTGCAACATGCGCAACTGCAACCAGTCCAGGCCAGCAGATCACACGgtacatgatggtttcacctcgctttactgcagattgttggcttgctgctttgcgcatagtgtacctgtggttacttctgcttgttgcttgcccgtttgcatttacctggtgctgctattgctttctgttcagaag---------

upper sequence: LOC_Os08g41010.7 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G134770_T03 (Zea mays), 5'ss of exon 3
GGACGACTGGGTTTGCCCCAGCTGCCAGAACGTCAACTTCGCCTTCCGCACCACCTGCAACATGCGCAATTGCAACCAATCCAGGCCCACCGACTATACGgtacatgtgattgccaccgatgcgcgct-catgtggttgattagttcc---gctcatcgtgatttttgcatttacctagtcgtgctgttgcctcctctccagaaggata-tgcag------------------
||||||||||||||||||||||||| ||||||| ||||||||||| |||||||| |||||||||||||| |||||||| ||||||||  | ||  | ||||||||||    |  ||||        || ||  | ||||  | | | |   || ||| ||| |   ||   |||| |   | || || |  | | | | ||      |  ||| |                  
GGACGACTGGGTTTGCCCCAGCTGCAAGAACGTTAACTTCGCCTTTCGCACCACTTGCAACATGCGCAACTGCAACCAGTCCAGGCCAGCAGATCACACGgtacatgatggtttcacctcgctttactgcagattgttggcttgctgctttgcgcatagtg-tacctgtggttacttctgcttgttgcttgcccgtttgcatttacctggtgctgctattgctttctgttcag

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|58673635|gb|CK062321.1|CK062321
EST:     CCACCTGCAACATGCGCAATTGCAACCAATCCAGGCCCACCGACTATACGGATATGCAG                 
genomic: CCACCTGCAACATGCGCAATTGCAACCAATCCAGGCCCACCGAC--T----ATA--C-Ggtacatgtga ... gg