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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCGACGGCGTGACGCACTCGGGCCCGAGCAAGATGGTGCTCTACTTCACTGGCGCCACCAACATCCTCTACACTTTCGGCGGACACGCCGTCACTGTgtaagtgcactaaaagaaccctatgctactgtaaattgtgacgcataaaccatgcaatgcctctgctaattttgtcatgaatggttatcgacaactgggt...

Basic information

species Oryza sativa
transcript LOC_Os05g37470.3
intron # 5
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 5
lower sequence: GRMZM2G067022_T02 (Zea mays), 5'ss of exon 5
GTCGACGGCGTGACGCACTCGGGCCCGAGCAAGATGGTGCTCTACTTCACTGGCGCCACCAACATCCTCTACACTTTCGGCGGACACGCCGTCACTGTgtaagtgcacta--aaagaaccctatgcta--ctgta--aattgtgacgcataaaccatgcaatgcctctgctaattttgtcatgaatggttatcgacaactgggt
|||   ||||| || ||||| ||||| |||||| | |||| ||||||||| ||||||||||||||||||||||| |||||||| |||||  ||||||||| ||  ||||   |||  |||| |  ||   |||||  |||    | ||   ||||||  | |   | |  |||   |    | |||||  |  ||   |  |  
GTCCCAGGCGTCACCCACTCTGGCCCCAGCAAGCTCGTGCCCTACTTCACCGGCGCCACCAACATCCTCTACACCTTCGGCGGCCACGCGATCACTGTgtgagcacactttcaaacgacccgacccttttctgtactaatctcaatgcggcaaccatata-tatatata-taaccgtactgtcaatggcaactga--gccag--

upper sequence: LOC_Os05g37470.1 (Oryza sativa), 5'ss of exon 5
lower sequence: AT5G01240.2 (Arabidopsis thaliana), 5'ss of exon 4
GTCGACGGCGTGACGCACTCGGGCCCGAGCAAGATGGTGCTCTACTTCACTGGCGCCACCAACATCCTCTACACTTTCGGCGGACACGCCGTCACTGTgtaagtgcactaaaagaaccctatgctactgtaaattgtgacgcataaaccatg-caatgcctctgctaattttgtcatgaatggttatcgacaactgggt-
|  || || ||||| || || || || | |||| | ||| | ||||| || || ||||||||||||||||| || ||||| |||||||| || || ||||||||    | ||     |  |||  | | | ||||     | |||| |||   ||||        | ||    || | |     ||   | |  ||| | 
GCGGAGGGTGTGACACATTCCGGTCCAACCAAGCTTGTGTTGTACTTTACCGGAGCCACCAACATCCTCTATACCTTCGGTGGACACGCTGTGACCGTgtaagtatttttaatatttctcatgg-attttcaatta-attgtataatccacaacaattggaaaagtgatgcattcctaacaaactaattatagttggata

upper sequence: LOC_Os05g37470.1 (Oryza sativa), 5'ss of exon 5
lower sequence: EFJ36050 (Selaginella moellendorffii), 5'ss of exon 5
GTCGACGGCGTGACGCACTCGGGCCCGAGCAAGATGGTGCTCTACTTCACTGGCGCCACCAACATCCTCTACACTTTCGGCGGACACGCCGTCACTGTgtaagtgcactaaaagaacc-ctatgctactgtaaattgtgacgcataaaccatgcaatgcctctgctaattttgtcatgaatggttatcgac--aactgggt-------------------------------------------------------------------------------------
| |   || || | ||| |||| ||| |  ||  | || |  || |||||||| |||||||||||| | ||||| || || || || |||||||||||||||||  |  |  |    | |    | ||| |   |  |    |   | |  | ||  |  ||      |||| |      |  ||   |     |     |                                                                                     
GACCCAGGTGTAAAGCATTCGGCCCCAAATAATCTCGTCCAATATTTCACTGGAGCCACCAACATCTTGTACACCTTTGGTGGTCATGCCGTCACTGTgtaagtcgatcatgattctcacggcaccactttgcttgatcctacgatatcattccatcgattccctcctttttctttcctgttcttcctgctcagatcaaatcattcccttccggatcaaatcaagttttttcttacttctttttgcaagaccagatgatatagctaagtttgtggttttcttgcag

upper sequence: LOC_Os05g37470.1 (Oryza sativa), 5'ss of exon 5
lower sequence: EFJ18760 (Selaginella moellendorffii), 5'ss of exon 5
GTCGACGGCGTGACGCACTCGGGCCCGAGCAAGATGGTGCTCTACTTCACTGGCGCCACCAACATCCTCTACACTTTCGGCGGACACGCCGTCACTGTgtaagtgcactaaaagaacc-ctatgctactgtaaattgtgacgcataaaccatgcaatgcctctgctaattttgtcatgaatggttatcgac--aactgggt----------------------------------------------------------------------------------------
| |   || || | ||| |||| ||| |  ||  | || |  || |||||||| |||||||||||| | ||||| || || || || |||||||||||||||||  |  |  |    | |    | ||| |   |  |    |   | |  | ||  |  ||      |||| |      |  ||   |     |     |                                                                                        
GACCCAGGTGTAAAGCATTCGGCCCCAAATAATCTCGTCCAATATTTCACTGGAGCCACCAACATCTTGTACACCTTTGGTGGCCATGCCGTCACTGTgtaagtcgatcatgattctcacggcaccactttgcttgatcctacgatatcattccatcgattccctcctttttctttcctgttcttcctgctcagatcaaatcatacccctccggatcaaatcaagttttttcttacttctttttgcaagaccagatgatataactaagttgtttgtggttttcttgcag

upper sequence: LOC_Os05g37470.1 (Oryza sativa), 5'ss of exon 5
lower sequence: EFJ34222 (Selaginella moellendorffii), 5'ss of exon 5
GTCGACGGCGTGACGCACTCGGGCCCGAGCAAGATGGTGCTCTACTTCACTGGCGCCACCAACATCCTCTACACTTTCGGCGGACACGCCGTCACTGTgtaagtgcactaaaagaaccctatgctactgtaaattgtgacgcataaaccatgcaatgcctctgctaattttgtcatgaatggttatcgacaactgggt
|  |||   || | |||| | ||  |||||||  ||||||||||||||||||| ||||| ||||| ||||| || || || || || || || ||||||||||    |        | || | ||    |  || |  | ||||   |    ||    || ||   || ||  ||                       
GCGGACAATGTCAAGCACACTGGAGCGAGCAAACTGGTGCTCTACTTCACTGGAGCCACAAACATACTCTATACATTTGGAGGCCATGCGGTGACTGTgtaagctttcgcttctttcgctgttcttgcatggatcgataggcat---cttctcataaactttg---atcttcccag----------------------

upper sequence: LOC_Os05g37470.1 (Oryza sativa), 5'ss of exon 5
lower sequence: EFJ21839 (Selaginella moellendorffii), 5'ss of exon 5
GTCGACGGCGTGACGCACTCGGGCCCGAGCAAGATGGTGCTCTACTTCACTGGCGCCACCAACATCCTCTACACTTTCGGCGGACACGCCGTCACTGTgtaagtgcactaaaagaaccctatgctactgtaaattgtgacgcataaaccatgcaatgcctctgctaattttgtcatgaatggttatcgacaactgggt
|  |||   || | |||| | ||  |||||||  ||||||||||||||||||| ||||| ||||| ||||| || || || || || || || ||||||||||    |     |   | |  |||  | |    ||   || |||  | |||   || |        |||| |||| ||   | |||  |  |  |  
GCGGACAATGTCAAGCACACTGGAGCGAGCAAACTGGTGCTCTACTTCACTGGAGCCACAAACATACTCTATACATTTGGAGGCCATGCGGTGACTGTgtaagctttc-----gcttctttcgctgttcttgcatggatcg-ataggctatgt--tgtcatc-----ttttctcataaactttgatcttc--ccag--

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|29638464|gb|CB643473.1|CB643473
EST:     ACTGGCGCCACCAACATCCTCTACACTTTCGGCGGACACGCCGTCACTGT                         AGAGATCATGCACGCGATGTGGAAGCCGCAGAAGTTCAAGTACATCTACCT
genomic: ACTGGCGCCACCAACATCCTCTACACTTTCGGCGGACACGCCGTCACTGTgtaagtgcac ... acgcgtgcagAGAGATCATGCACGCGATGTGGAAGCCGCAGAAGTTCAAGTACATCTACCT
EST: gi|86891273|gb|CI307993.1|CI307993
EST:     ACTGGCGCCACCAACATCCTCTACACTTTCGGCGGACACGCCGTCACTGT                         AGAGATCATGCACGCGATGTGGAAGCCGCAGAAGTTCAAGTACATCTACCT
genomic: ACTGGCGCCACCAACATCCTCTACACTTTCGGCGGACACGCCGTCACTGTgtaagtgcac ... acgcgtgcagAGAGATCATGCACGCGATGTGGAAGCCGCAGAAGTTCAAGTACATCTACCT