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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCATGCAAATAGTGAGTACTGCCAGATTGTTACAGGACCAAACATGGGAGGAAAGAGTTGCTATATTCGTCAAGTTGCTCTAATTACATTGATGGCCCAGgtataaatattgtctcacacttgtagttcactcatgttaacatgttctggatgtataacatagttactgcaaacttagttgttgggcttaggacctgaggaagtaagggtttactttgttgttatcttaccctgactctgagattatcctaacacttggtacactgatttccttag

Basic information

species Oryza sativa
transcript LOC_Os04g58630.2
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g58630.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GLYMA20G29680.1 (Glycine max), 5'ss of exon 10
TCATGCAAATAGTGAGTACTGCCAGATTGTTACAGGACCAAACATGGGAGGAAAGAGTTGCTATATTCGTCAAGTTGCTCTAATTACATTGATGGCCCAGgtataaatattgtctcacacttgtagttcactcatgttaacatgttctggatgtataacatagttactgcaaacttagttgttgggcttaggacctgaggaagtaagggtttactttgttgttatcttaccctgactctgagattatcctaacacttggtacactgatttccttag
 |||||| || | |||||||| ||||||||||| ||||| || ||||| ||||| ||||| |||||||| || || ||||| |||    | ||||| |||||| ||  | ||         |||  |  | |  ||     |  || |  |  | |        | | | |||     |  ||    ||   |     | |||                                                                         
GCATGCAGATGGAGAGTACTGTCAGATTGTTACTGGACCCAATATGGGGGGAAAAAGTTGTTATATTCGCCAGGTGGCTCTGATTGTTATAATGGCTCAGgtagaatcaatgca----gtgtgtgctatatttctgccgttaatttatcaacttgttgaggttctgcagtaaagcatatgctttactttgtaaatactgaaagc------------------------------------------------------------------------

upper sequence: LOC_Os04g58630.2 (Oryza sativa), 5'ss of exon 10
lower sequence: AT4G25540.1 (Arabidopsis thaliana), 5'ss of exon 10
TCATGCAAATAGTGAGTACTGCCAGATTGTTACAGGACCAAACATGGGAGGAAAGAGTTGCTATATTCGTCAAGTTGCTCTAATTACATTGATGGCCCAGgta---taaatattgtc--tcacacttgtagttcactcatgttaacatgttctggatgtataacatagttactgcaaacttagttgttgggcttaggacctgaggaagtaagggtttactttgttgttatcttaccctgactctgagattatcctaacacttggtacactgatttccttag
 |||||| |  | || || ||||| ||| | || ||||| ||||||||||||||||| |||||||| |||||||||||| ||||| |  | ||||| ||||||   |||| |||  |  |   |    |   |  |  ||||| | |||  ||  |||  | |   || || | | |  || ||| |   |                                                                                          
GCATGCAGAAGGGGAATATTGCCAAATTATCACCGGACCTAACATGGGAGGAAAGAGCTGCTATATCCGTCAAGTTGCTTTAATTTCCATAATGGCTCAGgtaacataaacattaacagtagaaaaaatctcttgcatatgttgaaatg--ctaaatgattca---agatattccca--ttggttttccag------------------------------------------------------------------------------------------

upper sequence: LOC_Os04g58630.2 (Oryza sativa), 5'ss of exon 10
lower sequence: Vv16s0100g01310.t01 (Vitis vinifera), 5'ss of exon 10
TCATGCAAATAGTGAGTACTGCCAGATTGTTACAGGACCAAACATGGGAGGAAAGAGTTGCTATATTCGTCAAGTTGCTCTAATTACATTGATGGCCCAGgtataaatattgtctcacacttgtagttcactcatg-ttaacatgttctggatgtataacatagttactgcaaacttagttgttgggcttaggacctgaggaa-gtaagggtttactttgttgttatcttaccctgactctgagattatcctaacacttggtacactgatttccttag
 |||||| |  | ||||||||  |||||||||| |||||||||||||| |||||||||||||||||||| ||||| ||||| ||| |  | |||||||||||| ||  |     | ||| |     ||  |||||| |  |||| || |     ||| ||   | | ||      ||  ||||   | | |   |||||   | ||                                                                        
GCATGCAGACGGAGAGTACTGTGAGATTGTTACTGGACCAAACATGGGTGGAAAGAGTTGCTATATTCGCCAAGTGGCTCTCATTGCTATCATGGCCCAGgtagaaccagcacttgacatt----atttgctcatgatccacattttatttgcttatgaccctgctgctt--gttttccttgtgctgttaaacccctgacatacgt------------------------------------------------------------------------

upper sequence: LOC_Os04g58630.2 (Oryza sativa), 5'ss of exon 10
lower sequence: EFJ17558 (Selaginella moellendorffii), 5'ss of exon 10
TCATGCAAATAGTGAGTACTGCCAGATTGTTACAGGACCAAACATGGGAGGAAAGAGTTGCTATATTCGTCAAGTTGCTCTAATTACATTGATGGCCCAGgtataaatattgtctcacacttgtagttcactcatgttaacatgttctggatgtataacatagttactgcaaacttagttgttgggcttaggacctgaggaagtaagggtttactttgttgttatcttaccctgactctgagattatcctaacacttggtacactgatttccttag
|  ||   |  ||||    |  || ||  | || || ||||||||||| || || |||||||| || ||||||||||||||||| ||| | ||| |||||||    | | | |||   | || |  |||||||  ||  |  | || |    ||  |                                                                                                                       
TTCTGGTGAGGGTGAACGATCGCAAATAATCACTGGTCCAAACATGGGTGGTAAAAGTTGCTACATCCGTCAAGTTGCTCTAATCACAATCATGTCCCAGgttcgca-actatctt-tatttctt-ttcactc-cgt--atgttttgttatcgtgcag----------------------------------------------------------------------------------------------------------------------

upper sequence: LOC_Os04g58630.2 (Oryza sativa), 5'ss of exon 10
lower sequence: EFJ29021 (Selaginella moellendorffii), 5'ss of exon 10
TCATGCAAATAGTGAGTACTGCCAGATTGTTACAGGACCAAACATGGGAGGAAAGAGTTGCTATATTCGTCAAGTTGCTCTAATTACATTGATGGCCCAGgtataaatattgtctcacacttgtagttcactcatgttaacatgttctggatgtataacatagttactgcaaacttagttgttgggcttaggacctgaggaagtaagggtttactttgttgttatcttaccctgactctgagattatcctaacacttggtacactgatttccttag
|   |   |  ||||    |  || ||  | || || ||||||||||| || || |||||||| || ||||||||||||||||| ||| | ||| |||||||    |   | |||   | || |  |||||||  ||  |  | || |    ||  |                                                                                                                       
TTCCGGTGAGGGTGAACGATCGCAAATAATCACTGGTCCAAACATGGGTGGTAAAAGTTGCTACATCCGTCAAGTTGCTCTAATCACAATCATGTCCCAGgttcgca-gctatctt-tatttctt-ttcactc-cgt--atgttttgttatcgtgcag----------------------------------------------------------------------------------------------------------------------

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|58653372|gb|CK042052.1|CK042052
EST:     GTTGCTATATTCGTCAAGTTGCTCTAATTACATTGATGGCCCAG                         GTTGGTTCCTTCGGACCAGCTTCATCAGCAACATTGCATGCTGTTGATGGA
genomic: GTTGCTATATTCGTCAAGTTGCTCTAATTACATTGATGGCCCAGgtataaatat ... atttccttagGTTGGTTCCTTCGTACCAGCTTCATCAGCAACATTGCATGCTGTTGATGGA