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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCCACAAATACACTGGTATATAATGACTAGCCCCTTTACTGATGAAGCGACTCGAAAATTTTTTGAAAGCCACAGATATTTTGGCTTAGAGCCTGACCAAgtaaggatcactactttattctttattatgaacggaaattccagtgaagttcaacatgtgacctcctattgccctatgaaacttctaagaattatgtttgacttgattctttattcgtag

Basic information

species Oryza sativa
transcript LOC_Os08g10600.3
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g10600.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G155729_T01 (Zea mays), 5'ss of exon 6
TCCACAAATACACTGGTATATAATGACTAGCCCCTTTACTGATGAAGCGACTCGAAAATTTTTTGAAAGCCACAGATATTTTGGCTTAGAGCCTGACCAAgtaaggatcactactttattctttattatgaacggaaattccagtgaagttcaacatgtgacctcctattgccctatgaaacttctaagaattatgtttgacttgattctt-tattcgtag
    ||||| ||||||||||||||||| || || ||||| ||||||| ||| ||||| || ||||||| ||||||||||||||| || |||||| | |||||||| || | ||| |  |||||| || ||| | || ||||   |  | ||| | |  |||  ||||        ||   |||  ||||||| |    ||| || |||||| | |||| ||
AGTGCAAATTCACTGGTATATAATGACGAGTCCTTTTACCGATGAAGTGACCCGAAAGTTCTTTGAAACCCACAGATATTTTGGTTTGGAGCCTAATCAAgtaagaataattacatgcttctttgttgtgatcagagattct--ttgacttcgatacatgatttcctga------atattacta-taagaatcacagctgattttattcttgtcttcgcag

upper sequence: LOC_Os08g10600.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA08G09170.2 (Glycine max), 5'ss of exon 7
TCCACAAATACACTGGTATATAATGACTAGCCCCTTTACTGATGAAGCGACTCGAAAATTTTTTGAAAGCCACAGATATTTTGGCTTAGAGCCTGACCAAgtaaggatcactactttattctttattatgaacggaaattccagtgaagttcaacatgtgacctcctattgccctatgaaacttctaagaattatgtttgacttgattctttattcgtag
    |||||||||||||| || |||||||| || || |||||||| || || || ||||| |||||||| || | || ||||||  | ||| | || || |||||      |   | |  |||| | |||        ||| | |     |   | | | || | |||| | | |||    ||  |    ||                            
AGTGCAAATACACTGGTACATCATGACTAGTCCATTCACTGATGAGGCAACACGCAAATTCTTTGAAAGTCATAAATTTTTTGGTCTTGAGGCAGAACAGgtaaga-----tgtctaaacctttttcatg--------ttctattagtact---cgttttacttactatggacttat----ctctttgatatag--------------------------

upper sequence: LOC_Os08g10600.1 (Oryza sativa), 5'ss of exon 6
lower sequence: AT1G31070.2 (Arabidopsis thaliana), 5'ss of exon 6
-TCCACAAATACACTGGTATATAATGACTAGCCCCTTTACTGATGAAGCGACTCGAAAATTTTTTGAAAGCCACAGATATTTTGGCTTAGAGCCTGACCAAgtaaggatcactactttattctttattatgaacggaaattccagtgaagttcaacatgtgacctcctattgccctatgaaacttctaagaattatgtttgacttgattctttattcgtag
    |||| |||| |||||||| |||||||| || ||||||||||||||||| ||||||| |||    || ||||  || |||||  | || || || ||||||||       |   |  |  ||  ||| |||     ||   ||    | |  | | |   ||   |     ||     |||||| |  |                             
AGTTACAA-TACATTGGTATATTATGACTAGTCCATTTACTGATGAAGCGACACGAAAATATTTCTCGAGTCACAAGTACTTTGGTCTTGAACCAGATCAAgtaag-------atgctgcttatttgtataaacattccttattgttgtttccttcgtct---cttagaccaatcttgatcacttcttactacag--------------------------

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|218500747|gb|FG962718.1|FG962718
EST:     CTCGAAAATTTTTTGAAAGCCACAGATATTTTGGCTTAGAGCCTGACCAA                         GTAACATTTTTCCAGCAAGGTACTATTCCATGTGTCTCAGCTGATGGAAGG
genomic: CTCGAAAATTTTTTGAAAGCCACAGATATTTTGGCTTAGAGCCTGACCAAgtaaggatca ... ttattcgtagGTAACATTTTTCCAGCAAGGTACTATCCCATGTGTCTCAGCTGATGGAAGG
EST: gi|27576482|gb|CA999176.1|CA999176
EST:     CTCGAAAATTTTTTGAAAGCCACAGATATTTTGGCTTAGAGCCTGACCAA                         GTAACATTTTTCCAGCAAGGTACTATCCCATGTGTCTCAGCTGATGGAAGG
genomic: CTCGAAAATTTTTTGAAAGCCACAGATATTTTGGCTTAGAGCCTGACCAAgtaaggatca ... ttattcgtagGTAACATTTTTCCAGCAAGGTACTATCCCATGTGTCTCAGCTGATGGAAGG
EST: gi|29616664|gb|CB621676.1|CB621676
EST:     CTCGAAAATTTTTTGAAAGCCACAGATATTTTGGCTTAGAGCCTGACCAA                         GTAACATTTTTCCAGCAAGGTACTATTCCATGTGTCTCAGCTGATGGAAGG
genomic: CTCGAAAATTTTTTGAAAGCCACAGATATTTTGGCTTAGAGCCTGACCAAgtaaggatca ... ttattcgtagGTAACATTTTTCCAGCAAGGTACTATCCCATGTGTCTCAGCTGATGGAAGG