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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGGTAGAACTGAGAATCCACCAAGTCCTGGGTCACGATGGAAGAAGGGGAAGCTAATTGGCCGTGGAACATTTGGTCATGTATATGTTGGCTTTAACAGgtaagaatattcctaactttgaaatttcatttttttttaaaaaatcatatgacgtactatgaatatactaagcatcttggaatttttgtaagatcttagc...

Basic information

species Oryza sativa
transcript LOC_Os04g47240.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g47240.3 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G175504_T01 (Zea mays), 5'ss of exon 2
CTGGTAGAACTGAGAATCCACCAAGTCCTGGGTCACGATGGAAGAAGGGGAAGCTAATTGGCCGTGGAACATTTGGTCATGTATATGTTGGCTTTAACAGgtaagaatattcctaactttgaaatttcatttttttttaaaaaatcatatgacgtacta-tgaatatactaagcatcttggaatttttgtaagatcttagc-----
|||| ||||| ||||||||| |||||||||  || |||||||||||||| ||||| ||||| ||||| |||| ||||||||||||||||||||| ||||||||    | ||||||  | |||| ||  | | |       ||  |  |||    ||  | |  || |  ||  ||||||   |   || |  | |  |        
CTGGCAGAACAGAGAATCCATCAAGTCCTGCATCGCGATGGAAGAAGGGCAAGCTGATTGGTCGTGGGACATCTGGTCATGTATATGTTGGCTTCAACAGgtatttgttttcctatgtatgaatttcaaatgt------gaagtttgtattttctataaatatatgttttagtcatctttacaagcttttggggttgtttttggtc

upper sequence: LOC_Os04g47240.3 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA08G01880.1 (Glycine max), 5'ss of exon 2
CTGGTAGAACTGAGAATCCACCAAGTCCTGGGTCACGATGGAAGAAGGGGAAGCTAATTGGCCGTGGAACATTTGGTCATGTATATGTTGGCTTTAACAGgtaagaatattcctaactttgaaatttcatttttttttaaaaaatcatatgacgtactatgaatatactaagcatcttggaatttttgtaagatcttagc-----
|||| ||| | || ||| || |||| || || ||||| ||||| |||||| || |  ||||  | ||||||||||| ||||||||| |||| ||||||||||  |  |||        | |||  ||| |||| || |     |  || |      || | ||| ||    ||| || | |    | || |  | ||  |     
CTGGCAGATCAGAAAATTCATCAAGCCCAGGTTCACGCTGGAAAAAGGGGCAGTTGCTTGGAAGGGGAACATTTGGACATGTATATCTTGGTTTTAACAGgtctg--tatcaagtgggtggaatcttctttttgttatcctgtagtatgtactcctctttaaat-tat--ggcacctggtacaaatggtcatttttttcccaatt

upper sequence: LOC_Os04g47240.3 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv16s0050g00770.t01 (Vitis vinifera), 5'ss of exon 2
CTGGTAGAACTGAGAATCCACCAAGTCCTGGGTCACGATGGAAGAAGGGGAAGCTAATTGGCCGTGGAACATTTGGTCATGTATATGTTGGCTTTAACAGgtaaga---atattcctaactttgaaatttcatttttttttaaaaaatcatatgacgtactatgaatatactaagcatcttgga-atttttgtaagatcttagc
| || ||| | |||  |||| |||| || || || || ||||| ||||| ||| |  | ||  | || |||||||| ||||| ||||||||||||||||||||  |   | |    ||| ||    | |||||||| ||||   | ||    |    || ||| | ||||   ||  ||||||  ||  ||   | |||  |  
CAGGAAGAGCAGAGGCTCCAACAAGCCCAGGCTCTCGCTGGAAAAAGGGAAAGTTGCTGGGAAGAGGCACATTTGGACATGTTTATGTTGGCTTTAACAGgtatcacctaaaagagtaaattctctacttcattttcttttgttatatttctt---atattat-actatatacagtttcttgggtataatttctacatccaatt

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|4715352|gb|AU056469.1|AU056469
EST:     AAGCTAATTGGCCGTGGAACATTTGGTCATGTATATGTTGGCTTTAACAG                         TGATAGTGGTGAAATGTGTGCGATGAAAGAAGTTACCCTATTCTTGGATGA
genomic: AAGCTAATTGGCCGTGGAACATTTGGTCATGTATATGTTGGCTTTAACAGgtaagaatat ... tttatatcagTGATAGTGGTGAAATGTGTGCGATGAAAGAAGTTACCCTATTCTTGGATGA
EST: gi|58598471|gb|CK008999.1|CK008999
EST:     AAGCTAATTGGCCGTGGAACATTTGGTCATGTATATGTTGGCTTTAACAG                         TGATAGTGGTGAAATGTGTGCGATGAAAGAAGTTACCCTATTCTTGGATGA
genomic: AAGCTAATTGGCCGTGGAACATTTGGTCATGTATATGTTGGCTTTAACAGgtaagaatat ... tttatatcagTGATAGTGGTGAAATGTGTGCGATGAAAGAAGTTACCCTATTCTTGGATGA