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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGTTGCTGAGTCAGTCAAGAATGACTTTGGCAGCATTGACATTTTGGTGCATTCTCTAGCTAATGGTCCAGAGgtatagtgcctctgcctatattcctctgtgcttactgctagtgatgaaattattgtccatacgtgttacgctttcaactaatgatcacctacctctgtttgaag

Basic information

species Oryza sativa
transcript LOC_Os08g23810.2
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g23810.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G070422_T03 (Zea mays), 5'ss of exon 7
GAAGTTGCTGAGTCAGTCAAGAATGACTTTGGCAGCATTGACATTTTGGTGCATTCTCTAGCTAATGGTCCAGAGgtatagtgcctctgcctatattcctctgtgcttactgcta-gtgatgaaattattgtccat-acgtgttacgctttcaact-aatgatcacctacctctgtttgaag---
||||||| ||| ||||| | |||||| |||||||||||||||||  | ||||||||||| |||||||| ||||||||| | |  | ||| |  | |   | ||||| ||| ||   ||| || |  | ||  |  | ||   ||       || || ||  | ||||||  |   |||   |   
GAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTGCATTCTCTTGCTAATGGCCCAGAGgtacaatctccctgtcgctgtgtatatgtgcatacagcggtgtgctgcagctctttcctgtgacactttgtctaaccatcttaaaaaccacctatattcattttgtgaag

upper sequence: LOC_Os08g23810.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G125052_T01 (Zea mays), 5'ss of exon 5
GAAGTTGCTGAGTCAGTCAAGAATGACTTTGGCAGCATTGACATTTTGGTGCATTCTCTAGCTAATGGTCCAGAGgtatagtgcctc---tgcctatattcctctgtgcttactgctagtgatgaaattattgtccat-acgtgttacgctttc-aactaa--tgatcacc-tacctctgtttgaag
||||||| ||| ||||| |||||||| |||||||||||||||||  | ||||| ||||| |||||||| ||||||||| | |  | |    |||| | |   | ||||   |  |   ||| || |  | |||    | ||    |||  | || ||| |   | |  |||  |  ||  |||||||
GAAGTTGTTGAATCAGTGAAGAATGATTTTGGCAGCATTGACATACTAGTGCACTCTCTTGCTAATGGCCCAGAGgtacaatatcgcactcgcctgtgtatatgtgtgtgcagcgggtgtggtgcagcttttgcttgtgacactgtacattgtctaaccatcttaaaaaccacatgtcattttgaag

upper sequence: LOC_Os08g23810.2 (Oryza sativa), 5'ss of exon 7
lower sequence: EFJ10940 (Selaginella moellendorffii), 5'ss of exon 6
GAAGTTGCTGAGTCAGTCAAGAATGACTTTGGCAGCATTGACATTTTGGTGCATTCTCTAGCTAATGGTCCAGAGgtatagtgcctctg---cctatattcctctgtgcttactgctagtgatgaaattattgtccatacgtgttacgctttcaactaatgatcacctacctctgtttgaag
||||| |  ||    || || || ||||||||||||||||| ||| | || |||||||| || ||||||||||| ||| || |  || |   ||| || ||||    |   | | ||  || |      || ||   | | |||| || | |||                            
GAAGTGGTGGACAGCGTGAAAAAAGACTTTGGCAGCATTGATATTCTCGTTCATTCTCTTGCGAATGGTCCAGAAgta-agagattcagattcctctaatcctgatcgtcgatttcttttgtt-----catcgtggttccttgtttcgatctcag---------------------------

upper sequence: LOC_Os08g23810.2 (Oryza sativa), 5'ss of exon 7
lower sequence: EFJ25882 (Selaginella moellendorffii), 5'ss of exon 6
GAAGTTGCTGAGTCAGTCAAGAATGACTTTGGCAGCATTGACATTTTGGTGCATTCTCTAGCTAATGGTCCAGAGgtatagtgcctctg---cctatattcctctgtgcttactgctagtgatgaaattattgtccatacgtgttacgctttcaactaatgatcacctacctctgtttgaag
||||| |  ||    || || || ||||||||||||||||| ||| | || |||||||| || ||||||||||| ||| || |  || |   ||| || ||||    |   | | ||  || | |  ||  |     | | |||| || | |||                            
GAAGTGGTGGACAGCGTGAAAAAAGACTTTGGCAGCATTGATATTCTCGTTCATTCTCTTGCGAATGGTCCAGAAgta-agagattcagattcctctaatcctgatcgtcgatttcttttgttcatcttggt-----tccttgtttcgatctcag---------------------------

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|58686263|gb|CK074950.1|CK074950
EST:     ACTTTGGCAGCATTGACATTTTGGTGCATTCTCTAGCTAATGGTCCAGAG                         GTAACAAAACCACTGTTGGAGACATCAAGAAGAGGGTATCTTGCTGCACTG
genomic: ACTTTGGCAGCATTGACATTTTGGTGCATTCTCTAGCTAATGGTCCAGAGgtatagtgcc ... ctgtttgaagGTAACAAAACCACTATTGGAGACATCAAGAAGAGGGTATCTTGCTGCACTG
EST: gi|29613728|gb|CB618741.1|CB618741
EST:     ACTTTGGCAGCATTGACATTTTGGTGCATTCTCTAGCTAATGGTCCAGAG                         GTAACAAAACCACTGTTGGAGACATCAAGAAGAGGGTATCTTGCTGCACTG
genomic: ACTTTGGCAGCATTGACATTTTGGTGCATTCTCTAGCTAATGGTCCAGAGgtatagtgcc ... ctgtttgaagGTAACAAAACCACTATTGGAGACATCAAGAAGAGGGTATCTTGCTGCACTG
EST: gi|29613729|gb|CB618742.1|CB618742
EST:     ACTTTGGCAGCATTGACATTTTGGTGCATTCTCTAGCTAATGGTCCAGAG                         GTAACAAAACCACTGTTGGAGACATCAAGAAGAGGGTATCTTGCTGCACTG
genomic: ACTTTGGCAGCATTGACATTTTGGTGCATTCTCTAGCTAATGGTCCAGAGgtatagtgcc ... ctgtttgaagGTAACAAAACCACTATTGGAGACATCAAGAAGAGGGTATCTTGCTGCACTG