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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCCAATCGTACAGATGCTTGTTTTATCCGTGTAATTGGCAGTGAGTTAGTTCAAAAATATGTTGGTGAAGGGGCACGGATGGTCCGGGAATTATTTCAGgtatgtgcaacattgtgaaaactcacaagaacttatcaattttctgcacttaaagtgcttctgtttgacaagcatgtttctgaaaaaaaaaatgttgacttggtttag

Basic information

species Oryza sativa
transcript LOC_Os02g54340.2
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g54340.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G181359_T01 (Zea mays), 5'ss of exon 7
GGCCAATCGTACAGATGCTTGTTTTATCCGTGTAATTGGCAGTGAGTTAGTTCAAAAATATGTTGGTGAAGGGGCACGGATGGTCCGGGAATTATTTCAGgtatgtgcaacattgtgaaaactcacaagaacttatcaattttctgcacttaaagtgcttctgtttgacaagcatgtttctgaaaaaaaaaatgttgacttggtttag
 || ||||| || ||||||||||| |||||||||||||| |||||||||||||| || ||||| || ||||| || ||||||||| ||||| | || ||||||| |  |    |||||  |     ||  | |   | | | | | ||      || | | ||||  |||    | |||||||||  ||   |  |    | |     
AGCAAATCGGACTGATGCTTGTTTCATCCGTGTAATTGGAAGTGAGTTAGTTCAGAAGTATGTCGGCGAAGGTGCTCGGATGGTCAGGGAACTTTTCCAGgtatatatatggctgtga--atctgtaaatattatcccagtcttttcat-----gtacgtgtgttcaaca----tatttctgaaatgaattcttctatggtag-----

upper sequence: LOC_Os02g54340.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA19G45140.1 (Glycine max), 5'ss of exon 7
GGCCAATCGTACAGATGCTTGTTTTATCCGTGTAATTGGCAGTGAGTTAGTTCAAAAATATGTTGGTGAAGGGGCACGGATGGTCCGGGAATTATTTCAGgtatgtgcaacattgtgaaaactcacaagaacttatcaattttctgcacttaaagtgcttctgtttgacaagcatgtttctgaaaaaaaaaatgttgacttggtttag
||| ||| | || ||||||||||||||  | || ||||| |||||| ||||||| |||||||||||||| || || || ||||| || ||| ||||||||||      |  || |  || |  |||      ||     |||| |  | ||    | |   | |||      |||| ||      ||  |||  || |  |  | |||
GGCTAATAGGACTGATGCTTGTTTTATAAGAGTTATTGGAAGTGAGCTAGTTCAGAAATATGTTGGTGAGGGTGCTCGAATGGTTCGTGAACTATTTCAGgtg-----agaatggctaagatgcac-----ttt-----ttttttaaattttttttcccgttatttccatgacatgatttcatcgaactaaaattttatgtcctctag

upper sequence: LOC_Os02g54340.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA03G42370.2 (Glycine max), 5'ss of exon 7
GGCCAATCGTACAGATGCTTGTTTTATCCGTGTAATTGGCAGTGAGTTAGTTCAAAAATATGTTGGTGAAGGGGCACGGATGGTCCGGGAATTATTTCAGgtatgtgcaacattgtgaaaactcacaagaacttatcaattttctgcacttaaagtgcttctgtttgacaagcatgtttctgaaaaaaaaaatgttgacttggtttag
||| ||| | || ||||||||||||||  | || ||||| |||||| ||||||| |||||||||||||| || || || ||||| || ||| ||||||||||   ||       |  || |  |||       |||  ||||| |    ||    || |||    ||||| |  |   |||||  ||||     ||||  |  | |||
GGCTAATAGGACTGATGCTTGTTTTATAAGAGTTATTGGAAGTGAGCTAGTTCAGAAATATGTTGGTGAGGGTGCTCGAATGGTTCGTGAACTATTTCAGgtgaatg-------gctaagatgcacc---ttctatttattttatat-ttttcgttgtttcca--tgacatgatttcatctgactaaaat----ttgatgtcctctag

upper sequence: LOC_Os02g54340.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA16G01810.1 (Glycine max), 5'ss of exon 7
GGCCAATCGTACAGATGCTTGTTTTATCCGTGTAATTGGCAGTGAGTTAGTTCAAAAATATGTTGGTGAAGGGGCACGGATGGTCCGGGAATTATTTCAGgtatgtgcaacattgtgaaaactcacaagaacttatcaattttctgcacttaaagtgcttctgtttgacaagcatgtt-tctgaaaaaaaaaatgttgacttggtttag
||| ||| | || ||||||||||||||  | || ||||| |||||| ||||||| |||||||| ||||| |||||  ||||||| || ||| |||||||||||  |   ||||        |   | ||   ||     || | | ||  | || | |     |||||| |  || || |||     |                     
GGCTAATAGGACTGATGCTTGTTTTATAAGGGTTATTGGAAGTGAGCTAGTTCAGAAATATGTCGGTGAGGGGGCTAGGATGGTTCGTGAACTATTTCAGgtaaat---acataagacgtgccttctagcttttgatcgttgtttcca--tgaaattcaatcatttgactaaaattttatctcttgtag--------------------

upper sequence: LOC_Os02g54340.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA07G05220.1 (Glycine max), 5'ss of exon 7
GGCCAATCGTACAGATGCTTGTTTTATCCGTGTAATTGGCAGTGAGTTAGTTCAAAAATATGTTGGTGAAGGGGCACGGATGGTCCGGGAATTATTTCAGgta---tgtgcaacattgtgaaaactcacaagaacttatcaattttctgcacttaaagtgcttctgtttgacaagcatgtttctgaaaaaaaaaatgttgacttggtttag
||| ||| | || ||||||||||||||  | || ||||| |||||| ||||||| |||||||||||||| |||||  ||||||| || ||| |||||||||||   ||  ||| | |  |    ||  |      |||||| || | | || | ||| |   ||  |||||| |  || ||||| |     |                   
GGCTAATAGGACTGATGCTTGTTTTATAAGGGTTATTGGAAGTGAGCTAGTTCAGAAATATGTTGGTGAGGGGGCTAGGATGGTTCGTGAACTATTTCAGgtaaaatgcacaagact-cgtcctctagcttttttttatca-ttgtttcca-tgaaaataaatc-atttgactaaaat-tttctcatttttag------------------

upper sequence: LOC_Os02g54340.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA03G42370.4 (Glycine max), 5'ss of exon 7
GGCCAATCGTACAGATGCTTGTTTTATCCGTGTAATTGGCAGTGAGTTAGTTCAAAAATATGTTGGTGAAGGGGCACGGATGGTCCGGGAATTATTTCAGgtatgtgcaacattgtgaaaactcacaagaacttatcaattt---tctgcacttaaagtgcttctgtttgacaagcatgtttctgaaaaaaaaaatgttgacttggtttag
||| ||| | || ||||||||||||||  | || ||||| |||||| ||||||| |||||||||||||| || || || ||||| || ||| ||||||||||   ||    |   || |   ||     |  ||||   |||   | |   | | |  || ||   | |||| |  || ||  ||      | |  |    ||      ||
GGCTAATAGGACTGATGCTTGTTTTATAAGAGTTATTGGAAGTGAGCTAGTTCAGAAATATGTTGGTGAGGGTGCTCGAATGGTTCGTGAACTATTTCAGgtgaatg-gctaagatgcaccttctatttattttatatttttcgttgtttccatgacatgatttcatctgactaaaat-ttgatgtcctctagatggcccgctctaagaag

upper sequence: LOC_Os02g54340.2 (Oryza sativa), 5'ss of exon 7
lower sequence: PP1S49_256V6.1 (Physcomitrella patens), 5'ss of exon 7
GGCCAATCGTACAGATGCTTGTTTTATCCGTGTAATTGGCAGTGAGTTAGTTCAAAAATATGTTGGTGAAGGGGCACGGATGGTCCGGGAATTATTTCAGgtatgtgcaacattgtgaaaactcacaa----gaacttatcaattttctgcacttaaagtgcttctgtttgacaagcatgtttctgaaaaaaaaaatgttgacttggtttag
 |||||| | ||||||||||| || || ||||| |||||||||||| | ||||| |||||||| || || || || ||||||||||| ||  | || |||| | ||  | | ||     |  |||||     ||  ||    ||  | || | ||| ||     || |     |  |||    ||| ||     | |  | || |       
TGCCAATAGGACAGATGCTTGCTTCATTCGTGTTATTGGCAGTGAGCTTGTTCAGAAATATGTAGGAGAGGGTGCTCGGATGGTCCGTGAGCTTTTCCAGgcaagtcaatcgtta-atcacttcacatccctgaggtttgatatggtttggatttagaga----ctatcctttagtcattcgcctggaacctgta-tactcacatc------

upper sequence: LOC_Os02g54340.2 (Oryza sativa), 5'ss of exon 7
lower sequence: EFJ29161 (Selaginella moellendorffii), 5'ss of exon 7
GGCCAATCGTACAGATGCTTGTTTTATCCGTGTAATTGGCAGTGAGTTAGTTCAAAAATATGTTGGTGAAGGGGCACGGATGGTCCGGGAATTATTTCAGgtatgtgcaacattgtgaaaactcacaagaac--ttatcaattttctgcacttaaagtgcttctgtttgacaagcatgtttctgaaaaaaaaaatgttgacttggtttag
|||||||||||||||||| || || || || || |||||||| ||| | || || || || ||||||||||| || || ||||| || || ||||| |||||||||   |   ||||   | ||     |    |  | ||  || |    ||    | ||  | ||     ||                                    
GGCCAATCGTACAGATGCCTGCTTCATTCGAGTTATTGGCAGCGAGCTCGTCCAGAAGTACGTTGGTGAAGGAGCTCGAATGGTGCGCGAGTTATTCCAGgtatgttacattctgtgtttattcctggcagtggtcttaaaagttttttttttccctttctctttttctttcag------------------------------------

upper sequence: LOC_Os02g54340.2 (Oryza sativa), 5'ss of exon 7
lower sequence: EFJ13722 (Selaginella moellendorffii), 5'ss of exon 7
GGCCAATCGTACAGATGCTTGTTTTATCCGTGTAATTGGCAGTGAGTTAGTTCAAAAATATGTTGGTGAAGGGGCACGGATGGTCCGGGAATTATTTCAGgtatgtgcaacattgtgaaaactc---acaagaacttatcaattttctgcacttaaagtgcttctgtttgacaagcatgtttctgaaaaaaaaaatgttgacttggtttag
|||||||||||||||||| || || || || || |||||||| ||| | || || || || ||||||||||| || || ||||| || || ||||| |||||||||   |    |||   | ||    ||      |   |||||| |    ||       |||| |||  |   ||                                  
GGCCAATCGTACAGATGCCTGCTTCATTCGAGTTATTGGCAGCGAGCTCGTCCAGAAGTACGTTGGTGAAGGAGCTCGAATGGTGCGCGAGTTATTCCAGgtatgttacattccgtgtttattcctggcagtggtcttaaaattttttatttttttttcctttctctttttctttcag---------------------------------

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|58654487|gb|CK043167.1|CK043167
EST:     TTCAAAAATATGTTGGTGAAGGGGCACGGATGGTCCGGGAATTATTTCAG                         ATGGCCCGCTCGAAGAAAGCATGCATTGTCTTCTTTGATGAGGTTGATGCT
genomic: TTCAAAAATATGTTGGTGAAGGGGCACGGATGGTCCGGGAATTATTTCAGgtatgtgcaa ... cttggtttagATGGCCCGCTCGAAGAAAGCATGCATTGTCTTCTTTGATGAGGTTGATGCT
EST: gi|84117608|gb|CD151375.1|CD151375
EST:     TCAAAAATATGTTGGTGAAGGGGCGACGGATGGTCCGGGAATTATTTCAG                         ATGGCCCGCTCGAAGAAAGCATGCATTGTC
genomic: TCAAAAATATGTTGGTGAAGGGGC-ACGGATGGTCCGGGAATTATTTCAGgtatgtgcaa ... cttggtttagATGGCCCGCTCGAAGAAAGCATGCATTGTC
EST: gi|58685776|gb|CK074463.1|CK074463
EST:     TTCAAAAATATGTTGGTGAAGGGGCACGGATGGTCCGGGAATTATTTCAG                         ATGGCCCGCTCGAAGAAAGCATGCATTGTCTTCTTTGATGAGGTTGATGCT
genomic: TTCAAAAATATGTTGGTGAAGGGGCACGGATGGTCCGGGAATTATTTCAGgtatgtgcaa ... cttggtttagATGGCCCGCTCGAAGAAAGCATGCATTGTCTTCTTTGATGAGGTTGATGCT
EST: gi|8857968|gb|AU095286.1|AU095286
EST:     TTCAAAAATATGTTGGTGAAGGGGCACGGATGGTCCGGGAATTATTTCAG                         ATGGCCCGCTCGAAGAAAAGCATGCATTGTCTTCTTTGATGAGGTTGATGC
genomic: TTCAAAAATATGTTGGTGAAGGGGCACGGATGGTCCGGGAATTATTTCAGgtatgtgcaa ... cttggtttagATGGCCCGCTCGAAGAAA-GCATGCATTGTCTTCTTTGATGAGGTTGATGC
EST: gi|58600395|gb|CK010923.1|CK010923
EST:     TTCAAAAATATGTTGGTGAAGGGGCACGGATGGTCCGGGAATTATTTCAG                         ATGGCCCGCTCGAAGAAAGCATGCATTGTCTTCTTTGATGAGGTTGATGCT
genomic: TTCAAAAATATGTTGGTGAAGGGGCACGGATGGTCCGGGAATTATTTCAGgtatgtgcaa ... cttggtttagATGGCCCGCTCGAAGAAAGCATGCATTGTCTTCTTTGATGAGGTTGATGCT