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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATCAACTCCGCCGTCGGCGCGCTCCTCGTCAGCTTCACCGTCTACATCATCCCCTCCCTCTCCCACATCCTCACGTACCGCTCCGCCTCCGCCAGATTGgtaagtgtgtgcagctacctttgccttttctttacttaccattaaattgcccgagtagattcctcatatatcaatatgaaacatgcactgtttgtctaaa...

Basic information

species Oryza sativa
transcript LOC_Os05g37470.3
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g37470.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G067022_T01 (Zea mays), 5'ss of exon 3
CATCAACTCCGCCGTCGGCGCGCTCCTCGTCAGCTTCACCGTCTACATCATCCCCTCCCTCTCCCACATCCTCACGTACCGCTCCGCCTCCGCCAGATTGgtaagtgtgtgcagcta--cctttgccttttctttacttaccattaaattgcccgagtagattcctcatatatcaatatgaaacatgcactgtttgtctaaa
|||||||||||||||||||||||||||||||||||||||||||||| |||||||  ||||| ||||||| ||||||||||||||||| ||||||||||||||||| ||||  |  |   || | | |||| ||     |||     || |  ||        | ||   ||  ||||   | |                   
CATCAACTCCGCCGTCGGCGCGCTCCTCGTCAGCTTCACCGTCTACGTCATCCCGGCCCTCGCCCACATGCTCACGTACCGCTCCGCGTCCGCCAGATTGgtaagcgtgtcgatatgatccgtcgtctttgctggctgtacatgctaactttcca---tcgcttcttggatg-caatgcaacag------------------

upper sequence: LOC_Os05g37470.1 (Oryza sativa), 5'ss of exon 6
lower sequence: AT5G01240.2 (Arabidopsis thaliana), 5'ss of exon 6
CATCAACTCCGCCGTCGGCGCGCTCCTCGTCAGCTTCACCGTCTACATCATCCCCTCCCTCTCCCACATCCTCACGTACCGCTCCGCCTCCGCCAGATTGgtaagtgtgtgcagctacctttgccttttctttacttaccattaaattgcccgagtagattcctcatatatcaatatgaaacatgcactg--tttgtctaaa------
 || ||||| || || || ||  | || || | |||||||||||| ||||||||  || |  ||||||| |||||||||||| ||||||| ||| |   ||||  |   | |   | |  | ||  |  | ||||  |    |||| |   | |  |||||      || ||| ||    |||| || |   ||  | || |      
AATAAACTCGGCAGTTGGAGCCTTACTTGTTACCTTCACCGTCTATATCATCCCTGCCTTAGCCCACATGCTCACGTACCGCACCGCCTCTGCCCGCCGGgtacctacattc---ttctctcgc--tcacattacc-attcctaaactatactaa-agattttatgaat-tcagtagatgacatacatttatttcatttagatagata

upper sequence: LOC_Os05g37470.1 (Oryza sativa), 5'ss of exon 6
lower sequence: EFJ21839 (Selaginella moellendorffii), 5'ss of exon 7
CATCAACTCCGCCGTCGGCGCGCTCCTCGTCAGCTTCACCGTCTACATCATCCCCTCCCTCTCCCACATCCTCACGTACCGCTCCGCCTCCGCCAGATTGgtaagtgtgtgcagctacctttgccttttcttta----cttaccattaaattgcccgagtagattcctcatatatcaatatgaaacatgcactgtttgtctaaa
 ||||||||||| ||||| ||||||||||||| |||||| ||||| ||||||||||| ||| | |||||  |||||||  |  | |||| ||||||   ||||||| | |   || |  | |   ||||||  |    ||| |  |     |  ||   |   | ||  | ||   | |||    | |||  ||||| ||||  
AATCAACTCCGCGGTCGGGGCGCTCCTCGTCACCTTCACTGTCTATATCATCCCCTCGCTCGCACACATGATCACGTATAGAACAGCCTTCGCCAGGGCGgtaagtttct--cgcaaaatctcgtttttctggaagttcttccactcctcgtttccttttgagtgccggagatgagattatttttcttgc-ttgtttctctag-

upper sequence: LOC_Os05g37470.1 (Oryza sativa), 5'ss of exon 6
lower sequence: EFJ34222 (Selaginella moellendorffii), 5'ss of exon 7
CATCAACTCCGCCGTCGGCGCGCTCCTCGTCAGCTTCACCGTCTACATCATCCCCTCCCTCTCCCACATCCTCACGTACCGCTCCGCCTCCGCCAGATTGgtaagtgtgtgcagctacctttgccttttcttta---cttaccattaaattgcccgagtagattcctcatatatcaatatgaaacatgcactgtttgtctaaa
 ||||||||||| ||||| ||||||||||||| |||||| ||||| ||||||||||| ||| | |||||  |||||||  |  | |||| ||||||   ||||||| | |   || |  | |   ||||||  |     | ||| |        |   |   | ||  | ||   | | |    | |||  ||||| ||| | 
AATCAACTCCGCGGTCGGGGCGCTCCTCGTCACCTTCACTGTCTATATCATCCCCTCGCTCGCACACATGATCACGTATAGAACAGCCTTCGCCAGGGCGgtaagtttct--cgcaaaatctcgtttttctggaagttcttccactgctcgtttcctttgagtgccaaagatgagattttttttcttgc-ttgtttctctgag

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|50878541|gb|AF527702.1|AF527702
EST:     TCCCCTCCCTCTCCCACATCCTCACGTACCGCTCCGCCTCCGCCAGATTG                         AATGCGGCGGAGAAGCCGCCGCCGTTCCTGCCGAGCTGGAGCGGGATGTTC
genomic: TCCCCTCCCTCTCCCACATCCTCACGTACCGCTCCGCCTCCGCCAGATTGgtaagtgtgt ... atgcaaacagAATGCGGCGGAGAAGCCGCCGCCGTTCCTGCCGAGCTGGAGCGGGATGTTC
EST: gi|29638465|gb|CB643474.1|CB643474
EST:     TCCCCTCCCTCTCCCACATCCTCACGTACCGCTCCGCCTCCGCCAGATTG                         AATGCGGCGGAGAAGCCGCCGCCGTTCCTGCCGAGCTGGAGCGGGATGTTC
genomic: TCCCCTCCCTCTCCCACATCCTCACGTACCGCTCCGCCTCCGCCAGATTGgtaagtgtgt ... atgcaaacagAATGCGGCGGAGAAGCCGCCGCCGTTCCTGCCGAGCTGGAGCGGGATGTTC
EST: gi|88198737|gb|CI198587.1|CI198587
EST:     TCCCCTCCCTCTCCCACATCCTCACGTACCGCTCCGCCTCCGCCAGATTG                         AATGCGGCGGAGAAGCCGCCGCCGTTCCTGCCGAGCTGGAGCGGGATGTTC
genomic: TCCCCTCCCTCTCCCACATCCTCACGTACCGCTCCGCCTCCGCCAGATTGgtaagtgtgt ... atgcaaacagAATGCGGCGGAGAAGCCGCCGCCGTTCCTGCCGAGCTGGAGCGGGATGTTC
EST: gi|86498402|gb|CI141035.1|CI141035
EST:     TCCCCTCCCTCTCCCACATCCTCACGTACCGCTCCGCCTCCGCCAGATTG                         AATGCGGCGGAGAAGCCGCCGCCGTTCCTGCCGAGCTGGAGCGGGATGTTC
genomic: TCCCCTCCCTCTCCCACATCCTCACGTACCGCTCCGCCTCCGCCAGATTGgtaagtgtgt ... atgcaaacagAATGCGGCGGAGAAGCCGCCGCCGTTCCTGCCGAGCTGGAGCGGGATGTTC
EST: gi|87039667|gb|CI194289.1|CI194289
EST:     TCCCCTCCCTCTCCCACATCCTCACGTACCGCTCCGCCTCCGCCAGATTG                         AATGCGGCGGAGAAGCCGCCGCCGTTCCTGCCGAGCTGGAGCGGGATGTTC
genomic: TCCCCTCCCTCTCCCACATCCTCACGTACCGCTCCGCCTCCGCCAGATTGgtaagtgtgt ... atgcaaacagAATGCGGCGGAGAAGCCGCCGCCGTTCCTGCCGAGCTGGAGCGGGATGTTC
EST: gi|86828578|gb|CI278668.1|CI278668
EST:     ACGTACCGCTCCGCCTCCGCCAGATTG                         AATGCGGCGGAGAAGCCGCCGCCGTTCCTGCCGAGCTGGAGCGGGATGTTC
genomic: ACGTACCGCTCCGCCTCCGCCAGATTGgtaagtgtgt ... atgcaaacagAATGCGGCGGAGAAGCCGCCGCCGTTCCTGCCGAGCTGGAGCGGGATGTTC
EST: gi|86599882|gb|CI256044.1|CI256044
EST:     TCCCCTCCCTCTCCCACATCCTCACGTACCGCTCCGCCTCCGCCAGATTG                         AATGCGGCGGAGAAGCCGCCGCCGTTCCTGCCGAGCTGGAGCGGGATGTTC
genomic: TCCCCTCCCTCTCCCACATCCTCACGTACCGCTCCGCCTCCGCCAGATTGgtaagtgtgt ... atgcaaacagAATGCGGCGGAGAAGCCGCCGCCGTTCCTGCCGAGCTGGAGCGGGATGTTC