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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCCTATCCATGAGGATTGCTTCAATGAGCCCAGTGTTGTATGGCTTTGGAATGGACAGCGATGGCCTCCATGACCAAgtaaatatctaaataaatatttgtaccttgaactaaatatgcctaaaattaatttcttgtgtaaagttagattaatgttcttaatctttttcag

Basic information

species Oryza sativa
transcript LOC_Os08g42470.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g42470.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G145579_T01 (Zea mays), 5'ss of exon 5
TTCCTATCCATGAGGATTGCTTCAATGAGCCCAGTGTTGTATGGCTTTGGAATGGACAGCGATGGCCTCCATGACCAAgtaaatatctaaataaatatttgtaccttgaactaaatatgcctaaaattaatttcttgtg-taaagttagattaatgttcttaatctttttcag--------------------
||||| |||||||||||||| || |||||||||||| |||| || || |||| | |||| || ||||| ||||| ||   |   | |   || ||   |    |  | ||  ||| |   | ||  | | | ||| |   ||  || ||   |  |   |||||  | | |                      
TTCCTTTCCATGAGGATTGCCTCCATGAGCCCAGTGCTGTACGGGTTCGGAACGAACAGTGAAGGCCTTCATGATCAT-CACGCACCAgtatgaactatgaaccaattaaacaaacaaaaccaatttaattatctaggaatatggtcagcgaatcgacgttaatactgtacgtgtaaacactgtgctgttcag

upper sequence: LOC_Os08g42470.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM5G882527_T03 (Zea mays), 5'ss of exon 5
TTCCTATCCATGAGGATTGCTTCAATGAGCCCAGTGTTGTATGGCTTTGGAATGGACAGCGATGGCCTCCATGACCAAgtaaatatctaaat-----aaatatttgtaccttgaactaaatatgcctaaaattaatttcttgtgtaaagttagatt----aatgttcttaatctttttcag
||||| |||||||||||||| || |||||||||||| | ||||| || ||| |||| || ||||||||||||||||| | | |  | |  |      ||||  || |    | | ||||| || |    ||| ||  |  ||| ||||  |  | |    |||     | || | ||||||
TTCCTTTCCATGAGGATTGCCTCCATGAGCCCAGTGCTATATGGGTTCGGACTGGATAGTGATGGCCTCCATGACCACGCACAAgtatggaacagcaaaatcatttttttgtcagctaaaaatacggtcaat-aagctgatgtttaaatgtgaactgtaaaattgcgctgatgtgtttcag

upper sequence: LOC_Os08g42470.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM5G882527_T02 (Zea mays), 5'ss of exon 5
TTCCTATCCATGAGGATTGCTTCAATGAGCCCAGTGTTGTATGGCTTTGGAATGGACAGCGATGGCCTCCATGACCAAgtaaatatctaaat-----aaatatttgtaccttgaactaaatatgcctaaaattaatttcttgtgtaaagttagatt----aatgttcttaatctttttcag---
||||| |||||||||||||| || |||||||||||| | ||||| || ||| |||| || ||||||||||||||||| | | |  | |  |      ||||  || |    | | ||||| || |    ||| ||  |  ||| ||||  |  | |    |||     | || | ||||||   
TTCCTTTCCATGAGGATTGCCTCCATGAGCCCAGTGCTATATGGGTTCGGACTGGATAGTGATGGCCTCCATGACCACGCACAAgtatggaacagcaaaatcatttttttgtcagctaaaaatacggtcaat-aagctgatgtttaaatgtgaactgtaaaattgcgctgatgtgtttcagaag

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|58669636|gb|CK058322.1|CK058322
EST:     GATGGCCTCCATGACCAA                         AAGATTGGAGGCATGTTCCAAGAAGCCCTTGCAATGCCTAATCCAGTACTG
genomic: GATGGCCTCCATGACCAAgtaaatatct ... tctttttcagAAGATTGGAGGCATGTTCCAAGAAGCCCTTGCAATGCCTAATCCAGTACTG
EST: gi|15852981|gb|BI805777.1|BI805777
EST:     CTTTGGAATGGACAGCGATGGCCTCCANGACC-A                         AAGATTGGAGGCATGTTCCTAGAAGCCCTTGC-ATGCCTAATCCAGTACTG
genomic: CTTTGGAATGGACAGCGATGGCCTCCATGACCAAgtaaatatct ... tctttttcagAAGATTGGAGGCATGTTCCAAGAAGCCCTTGCAATGCCTAATCCAGTACTG
EST: gi|163926679|gb|EG713695.1|EG713695
EST:     GCCCAGTGTTGTATGGCTTTGGAATGGACAGCGATGGCCTCCATGACCAA                         AAGATTGGAGGCATGTTCCAAGAAGCCCT
genomic: GCCCAGTGTTGTATGGCTTTGGAATGGACAGCGATGGCCTCCATGACCAAgtaaatatct ... tctttttcagAAGATTGGAGGCATGTTCCAAGAAGCCCT