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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTACGGACCACCTGGCACTGGAAAGACCCTAATGGCTCGTGCATGTGCTGCCCAAACTAACGCCACATTTCTGAAACTTGCTGGTCCACAGCTTGTCCAGgtagcttactttctgtgataaggctgttgaaagctatgtgatatccctgctcctgctaattcaaatatatgaaagctcaaatgatgctagggtccttaag...

Basic information

species Oryza sativa
transcript LOC_Os02g56000.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g56000.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G027282_T01 (Zea mays), 5'ss of exon 5
GTACGGACCACCTGGCACTGGAAAGACCCTAATGGCTCGTGCATGTGCTGCCCAAACTAACGCCACATTTCTGAAACTTGCTGGTCCACAGCTTGTCCAGgtagcttactttctgtgataaggctgttgaaagctatgtgatatccctgctcctgctaattcaaatatatgaa-agctcaaatgatgctagggtccttaag
||| ||||| ||||| ||||| || || || |||||||||||||| ||||| || || || || |||||||||||| | ||||||||||| ||||||||||||| | | |   |  |  ||   | ||  |       |    | |||    ||    |   ||  || |||  |  | | ||  || | | |   |    
GTATGGACCCCCTGGGACTGGGAAAACGCTCATGGCTCGTGCATGCGCTGCACAGACAAATGCAACATTTCTGAAATTGGCTGGTCCACAACTTGTCCAGgtaggtaattaaatccgtgaaatatattatacagatgctagggttcctaaggctctccaactaaccatttgagcattttacattctgtttgtgatttgcg-

upper sequence: LOC_Os02g56000.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA03G39500.1 (Glycine max), 5'ss of exon 5
GTACGGACCACCTGGCACTGGAAAGACCCTAATGGCTCGTGCATGTGCTGCCCAAACTAACGCCACATTTCTGAAACTTGCTGGTCCACAGCTTGTCCAGgtagcttactttctgtgataaggctgttgaaagctatgtgatatccctgctcctgctaattcaaat-atatgaaagctcaaatgatgctagggtccttaag--
 || ||||| || || |||||||| || ||||| || ||||| ||||| || ||||| || ||||| ||||||||  | || ||||||||||| |||||||||  | ||| |      |    | ||| ||   | | |   ||  ||  |  |   | |  |  | || |  ||         ||  ||   | || ||   
ATATGGACCTCCAGGAACTGGAAAAACACTAATTGCCCGTGCTTGTGCAGCACAAACAAATGCCACTTTTCTGAAGTTGGCAGGTCCACAGCTGGTCCAGgta--tgactcttccatttttacccgtttaattttct-tatcatgactagtaatttcattgtatcttattttgaattgttggcaattttaatttactgaattt

upper sequence: LOC_Os02g56000.2 (Oryza sativa), 5'ss of exon 5
lower sequence: Vv05s0020g01180.t01 (Vitis vinifera), 5'ss of exon 6
GTACGGACCACCTGGCACTGGAAAGACCCTAATGGCTCGTGCATGTGCTGCCCAAACTAACGCCACATTTCTGAAACTTGCTGGTCCACAGCTTGTCCAGgtagcttactttctgtgataaggctgttgaaagctatgtgatatccctgctcctgctaattcaaatatatgaaagctcaaatgatgctagggtccttaag--
||| || || || || ||||| || ||  ||||||||||||| |||||||| || || || ||||| |||||||| || ||||||||||| |||||||||||   |         ||| ||     |  |     ||    | |   ||    |  ||| |    |  ||||    ||||||   ||   |||  |  ||  
GTATGGGCCTCCAGGGACTGGCAAAACATTAATGGCTCGTGCTTGTGCTGCACAGACAAATGCCACTTTTCTGAAGCTAGCTGGTCCACAACTTGTCCAGgtcagt-gtccaacatgaaaatatcttacagcatgatcgtgtgtgtgtgtgtgttttaaatttctttgatgatt-ttcaaattgagcattggtaatccagag

upper sequence: LOC_Os02g56000.2 (Oryza sativa), 5'ss of exon 5
lower sequence: PP1S218_133V6.1 (Physcomitrella patens), 5'ss of exon 5
GTACGGACCACCTGGCACTGGAAAGACCCTAATGGCTCGTGCATGTGCTGCCCAAACTAACGCCACATTTCTGAAACTTGCTGGTCCACAGCTTGTCCAGgt---agcttactttctg-tgataaggctgttgaaagctatgtgatatccctgct-cctgctaattcaaatatatgaaagctcaa-atgatgctagggtccttaag--------------------------------------------------------
 || || ||||| || ||||| |||||||| ||||||||||| ||||| || ||||| || || || ||  |||| |||||||| || |||||||| |||||     | | || |||  | |      | ||     ||   |  | |   | |  | |  | |   | || ||   || ||||   |    || |  |    |||                                                        
ATATGGCCCACCCGGTACTGGCAAGACCCTCATGGCTCGTGCGTGTGCAGCTCAAACAAATGCTACTTTCTTGAAGCTTGCTGGACCTCAGCTTGTTCAGgttttgtcctgctctctccttagtgttttcttctggactggattttgtattttcagctttttgagaaacatgtacagaatctcactgtagaacttgttttaagaagttgggtcattcacttggctaagctcaaggcccttgttctcctcctgatcgttgcag

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|3759941|gb|C97199.1|C97199
EST:     CCCAAACTAACGCCACATTTCTGAAACTTGCTGGTCCACAGCTTGTCCAG                         ATGTTCATCGGTGATGGTGCAAAGCTTGTCCGTGATGCCTTTCAGCTTGCA
genomic: CCCAAACTAACGCCACATTTCTGAAACTTGCTGGTCCACAGCTTGTCCAGgtagcttact ... attggtccagATGTTCATCGGTGATGGTGCAAAGCTTGTCCGTGATGCCTTTCAGCTTGCA
EST: gi|29660288|gb|CB656563.1|CB656563
EST:     CCCAAACTAACGCCACATTTCTGAAACTTGGTGGTCCACAGCTTGTCCAG                         ATGTTCATCGGTGATGGTGCAAAGCTTGTCCGTGATGCCTTTCAGCTTGCA
genomic: CCCAAACTAACGCCACATTTCTGAAACTTGCTGGTCCACAGCTTGTCCAGgtagcttact ... attggtccagATGTTCATCGGTGATGGTGCAAAGCTTGTCCGTGATGCCTTTCAGCTTGCA
EST: gi|29682547|gb|CB678822.1|CB678822
EST:     CCCAAACTAACGCCACATTTGTGAAACTTGCTGGTCCACAGCTTGTCCAG                         ATGTTCATCGGTGATGGTGCAAAGCTTGTCCGTGATGCCTTTCAGCTTGCA
genomic: CCCAAACTAACGCCACATTTCTGAAACTTGCTGGTCCACAGCTTGTCCAGgtagcttact ... attggtccagATGTTCATCGGTGATGGTGCAAAGCTTGTCCGTGATGCCTTTCAGCTTGCA
EST: gi|29659489|gb|CB655764.1|CB655764
EST:     CCCAAACTAACGCCACATTTCTGAAACTTGCTGGTCCACAGCTTGTCCAG                         ATGTTCATCGGTGATGGTGCAAAGCTTGTCCGTGATGCCTTTCAGCTTGCA
genomic: CCCAAACTAACGCCACATTTCTGAAACTTGCTGGTCCACAGCTTGTCCAGgtagcttact ... attggtccagATGTTCATCGGTGATGGTGCAAAGCTTGTCCGTGATGCCTTTCAGCTTGCA
EST: gi|29626138|gb|CB631149.1|CB631149
EST:     CCCAAACTAACGCCACATTTCTGAAACTTGCTGGTCCACAGCTTGTCCAG                         ATGTTCATCGGTGATGGTGCAAAGCTTGTCCGTGATGCCTTTCAGCTTGCA
genomic: CCCAAACTAACGCCACATTTCTGAAACTTGCTGGTCCACAGCTTGTCCAGgtagcttact ... attggtccagATGTTCATCGGTGATGGTGCAAAGCTTGTCCGTGATGCCTTTCAGCTTGCA
EST: gi|29661398|gb|CB657673.1|CB657673
EST:     CCCAAACTAACGCCACATTTCTGAAACTTGCTGGTCCACAGCTTGTCCAG                         ATGTTCATCGGTGATGGTGCAAAGCTTGTCCGTGATGCCTTTCAGCTTGCA
genomic: CCCAAACTAACGCCACATTTCTGAAACTTGCTGGTCCACAGCTTGTCCAGgtagcttact ... attggtccagATGTTCATCGGTGATGGTGCAAAGCTTGTCCGTGATGCCTTTCAGCTTGCA
EST: gi|29659490|gb|CB655765.1|CB655765
EST:     CCCAAACTAACGCCACATTTCTGAAACTTGCTGGTCCACAGCTTGTCCAG                         ATGTTCATCGGTGATGGTGCAAAGCTTGTCCGTGATGCCTTTCAGCTTGCA
genomic: CCCAAACTAACGCCACATTTCTGAAACTTGCTGGTCCACAGCTTGTCCAGgtagcttact ... attggtccagATGTTCATCGGTGATGGTGCAAAGCTTGTCCGTGATGCCTTTCAGCTTGCA
EST: gi|29615761|gb|CB620773.1|CB620773
EST:     CCCAAACTAACGCCACATTTCTGAAACTTGCTGGTCCACAGCTTGTCCAG                         ATGTTCATCGGTGATGGTGCAAAGCTTGTCCGTGATGCCTTTCAGCTTGCA
genomic: CCCAAACTAACGCCACATTTCTGAAACTTGCTGGTCCACAGCTTGTCCAGgtagcttact ... attggtccagATGTTCATCGGTGATGGTGCAAAGCTTGTCCGTGATGCCTTTCAGCTTGCA
EST: gi|11173135|gb|AU164630.1|AU164630
EST:     CATTTNTGAAACTTGCTGGTCCACAGCTTGTCCAA                         ATGTTCATCGGTGATGGTGCAAAGCTTGTCCGTGATGCCTTTCAGCTTGCA
genomic: CATTTCTGAAACTTGCTGGTCCACAGCTTGTCCAGgtagcttact ... attggtccagATGTTCATCGGTGATGGTGCAAAGCTTGTCCGTGATGCCTTTCAGCTTGCA
EST: gi|29615719|gb|CB620731.1|CB620731
EST:     CCCAAACTAACGCCACATTTTTGAAACTTGTTGGTCCACAGCTTGTCCAG                         ATGTTCATCGGTGATGGTGCAAAGCTTGTCCGGGATGCCTTTCAGCTTGCA
genomic: CCCAAACTAACGCCACATTTCTGAAACTTGCTGGTCCACAGCTTGTCCAGgtagcttact ... attggtccagATGTTCATCGGTGATGGTGCAAAGCTTGTCCGTGATGCCTTTCAGCTTGCA
EST: gi|29683382|gb|CB679657.1|CB679657
EST:     AGCTTGTCCAG                         ATGTTCATCGGTGATGGTGCAAAGCTTGTCCGTGATGCCTTTCAGCTTGCA
genomic: AGCTTGTCCAGgtagcttact ... attggtccagATGTTCATCGGTGATGGTGCAAAGCTTGTCCGTGATGCCTTTCAGCTTGCA
EST: gi|29682519|gb|CB678794.1|CB678794
EST:     CCCAAACTAACGCCACATTTCTGAAACTTGCTGGTCCACAGCTTGTCCAG                         ATGTTCATCGGTGATGGTGCAAAGCTTGTCCGTGATGCCTTTCAGCTTGCA
genomic: CCCAAACTAACGCCACATTTCTGAAACTTGCTGGTCCACAGCTTGTCCAGgtagcttact ... attggtccagATGTTCATCGGTGATGGTGCAAAGCTTGTCCGTGATGCCTTTCAGCTTGCA
EST: gi|29683381|gb|CB679656.1|CB679656
EST:     CCCAAACTAACGCCACATTTCTGAAACTTGCTGGTCCACAGCTTGTCCAG                         ATGTTCATCGGTGATGGTGCAAAGCTTGTCCGTGATGCCTTTCAGCTTGCA
genomic: CCCAAACTAACGCCACATTTCTGAAACTTGCTGGTCCACAGCTTGTCCAGgtagcttact ... attggtccagATGTTCATCGGTGATGGTGCAAAGCTTGTCCGTGATGCCTTTCAGCTTGCA
EST: gi|29615715|gb|CB620727.1|CB620727
EST:     CCCAAACTAACGCCACATTTCTGAAACTTGCTGGTCCACAGCTTGTCCAG                         ATGTTCATCGGTGATGGTGCAAAGCTTGTCCGTGATGCCTTTCAGCTTGCA
genomic: CCCAAACTAACGCCACATTTCTGAAACTTGCTGGTCCACAGCTTGTCCAGgtagcttact ... attggtccagATGTTCATCGGTGATGGTGCAAAGCTTGTCCGTGATGCCTTTCAGCTTGCA
EST: gi|29684874|gb|CB681149.1|CB681149
EST:     CCCAAACTAACGCCACATTTCTGAAACTTGCTGGTCCACAGCTTGTCCAG                         ATGTTCATCGGTGATGGTGCAAAGCTTGTCCGTGATGCCTTTCAGCTTGCA
genomic: CCCAAACTAACGCCACATTTCTGAAACTTGCTGGTCCACAGCTTGTCCAGgtagcttact ... attggtccagATGTTCATCGGTGATGGTGCAAAGCTTGTCCGTGATGCCTTTCAGCTTGCA
EST: gi|29615721|gb|CB620733.1|CB620733
EST:     CCCAAACTAACGCCACATTTCTGAAACTTGCTGGTCCACAGCTTGTCCAG                         ATGTTCATCGGTGATGGTGCAAAGCTTGTCCGTGATGCCTTTCAGCTTGCA
genomic: CCCAAACTAACGCCACATTTCTGAAACTTGCTGGTCCACAGCTTGTCCAGgtagcttact ... attggtccagATGTTCATCGGTGATGGTGCAAAGCTTGTCCGTGATGCCTTTCAGCTTGCA