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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCACTTGATACATTTAATACTGCAATTGTATCTCCAATCTATTATGTAATGTTCACAACACTAACAATACTTGCAAGCGTCATAATGTTCAAGgtaatataagttcttttgtttccttgtactgcagccattcatttggtagatgatttgaatgcccaagttattttctgaaagaaactgaatatccttgatt...

Basic information

species Oryza sativa
transcript LOC_Os05g43790.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g43790.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G120175_T01 (Zea mays), 5'ss of exon 1
-------GCACTTGATACATTTAATACTGCAATTGTATCTCCAATCTATTATGTAATGTTCACAACACTAACAATACTTGCAAGCGTCATAATGTTCAAGgtaatataagttcttttgtttccttgtactgcagccattcatttggtagatgatttgaatgcccaagttattttctgaaagaaactgaatatccttg-att----------------------------------------------------------------------------------------
       |||||||| || || || || ||||||||||||||||| |||||||||||||||||||| || ||||||||||| ||||||||||||||||||||||  |  ||| |    ||  ||| ||          | ||||  |     | || | | ||  |   |  || || |         ||||  |   |||                                                                                        
GCTGTAGGCACTTGACACGTTCAACACGGCAATTGTATCTCCAATATATTATGTAATGTTCACAACTCTTACAATACTTGCCAGCGTCATAATGTTCAAGgtaaattttgttttgcctttggcttatatatttattgcttatttcattctgcaatttactccctcatgcaccttttggaccctttcagatattttcatattgttgtatttgtttcatatgcattcctcagctctagtattatttgacaaaaccgtaaactgatgccatgctgtttaaatgtttgtgtag

upper sequence: LOC_Os05g43790.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G120175_T04 (Zea mays), 5'ss of exon 7
GCACTTGATACATTTAATACTGCAATTGTATCTCCAATCTATTATGTAATGTTCACAACACTAACAATACTTGCAAGCGTCATAATGTTCAAGgtaatataagttcttttgtttccttgtactgcagccattcatttggtagatgatttgaatgcccaagttattttctgaaagaaactgaatatccttg-att----------------------------------------------------------------------------------------
|||||||| || || || || ||||||||||||||||| |||||||||||||||||||| || ||||||||||| ||||||||||||||||||||||  |  ||| |    ||  ||| ||          | ||||  |     | || | | ||  |   |  || || |         ||||  |   |||                                                                                        
GCACTTGACACGTTCAACACGGCAATTGTATCTCCAATATATTATGTAATGTTCACAACTCTTACAATACTTGCCAGCGTCATAATGTTCAAGgtaaattttgttttgcctttggcttatatatttattgcttatttcattctgcaatttactccctcatgcaccttttggaccctttcagatattttcatattgttgtatttgtttcatatgcattcctcagctctagtattatttgacaaaaccgtaaactgatgccatgctgtttaaatgtttgtgtag

upper sequence: LOC_Os05g43790.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA02G44980.2 (Glycine max), 5'ss of exon 6
GCACTTGATACATTTAATACTGCAATTGTATCTCCAATCTATTATGTAATGTTCACAACACTAACAATACTTGCAAGCGTCATAATGTTCAAGgtaatataagttc-ttttgtttccttgtactgcagccattcatttggtagatgattt---gaatgcccaagttattttctgaaagaaactgaatatccttgatt-
|| ||||| || || || || |||||||||||||| || || ||||| |||||||||||||| |||||||| || || || |||||||| ||||||  || | ||  |||||     |  | ||  |  |||    |   |   |  | |   || ||  ||||    | | |  |   ||   ||||    | |   
GCTCTTGACACCTTCAACACAGCAATTGTATCTCCTATATACTATGTCATGTTCACAACACTTACAATACTAGCCAGTGTAATAATGTTTAAGgtataatcaattagttttggcatttaatgctaaatgcataagatgtttctgttgtctacggattgtacaagaacctatttacatttaa--aaataatgcttacag

upper sequence: LOC_Os05g43790.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA14G03790.1 (Glycine max), 5'ss of exon 7
GCACTTGATACATTTAATACTGCAATTGTATCTCCAATCTATTATGTAATGTTCACAACACTAACAATACTTGCAAGCGTCATAATGTTCAAGgtaatataagttc-ttttgtttccttgtactgcagccat-------tcatttggtagatgatttgaatgcccaagttattttctgaaagaaactgaatatccttgatt
|| ||||| || || || || |||||||||||||| || || ||||| |||||||||||||| |||||||| || || || |||||||| ||||||  || |  |  |||||     |  | ||  |  |||       |  | | ||  | || ||| |     ||  ||||| |    | |||   |||          
GCTCTTGACACCTTCAACACAGCAATTGTATCTCCTATATACTATGTCATGTTCACAACACTTACAATACTAGCCAGTGTAATAATGTTTAAGgtataatcaactagttttggcatttaatgctaaatgcataagatgtttctgttgtctacgaattgtacaag-aacctatttacatttaaaaat--aatgcttacag--

upper sequence: LOC_Os05g43790.2 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv06s0009g03650.t01 (Vitis vinifera), 5'ss of exon 7
GCACTTGATACATTTAATACTGCAATTGTATCTCCAATCTATTATGTAATGTTCACAACACTAACAATACTTGCAAGCGTCATAATGTTCAAGgtaatataagttcttt---tgtttccttgtactgca-gccatt-catttggtagatgatttgaatgcccaagttattttctgaaagaaactgaatatccttgatt-
|| |||||||| || || |||||| |||| || || || |||||||| ||||||||| |||| ||||| ||||| || || ||||||||||||||| | |    | | |   ||    ||| | ||| | ||  || | |       || | ||    ||  |  |   ||  |         |   | | ||| ||| 
GCTCTTGATACTTTCAACACTGCAGTTGTGTCCCCCATATATTATGTCATGTTCACATCACTTACAATCCTTGCTAGTGTGATAATGTTCAAGgtattgtcttctttatcagtggcatcttatgctggatgctgtttcctccaacctataactttttagcaaatatagcttcattt------ttaggtttgctttatta

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|218503663|gb|FG954349.1|FG954349
EST:     ATGTAATGTTCACAACACTAACAATACTTGCAACCGTCATAATGTTCAAG                         GATTGGTCTGGTCAAAGCCTTGGAAGCATTACTTCTGAAATCTGTGGTCTG
genomic: ATGTAATGTTCACAACACTAACAATACTTGCAAGCGTCATAATGTTCAAGgtaatataag ... attggtgcagGATTGGTCTGGTCAAAGCCTTGGAAGCATTACTTCTGAAATCTGTGGTCTG
EST: gi|33662767|gb|CF293734.1|CF293734
EST:     ATGTAATGTTCACAACACTAACAATACTTGCAAGCGTCATAATGTTCAAG                         GATTGGTCTGGTCAAAGCCTTGGAAGCATTACTTCTGAAATCTGTGGTCTG
genomic: ATGTAATGTTCACAACACTAACAATACTTGCAAGCGTCATAATGTTCAAGgtaatataag ... attggtgcagGATTGGTCTGGTCAAAGCCTTGGAAGCATTACTTCTGAAATCTGTGGTCTG