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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCCTTCTCATATGACAAAGTTTTCGATCACGGTGCTTCACAAGAAGATGTGTTTGTGGAAATGTCACAACTAGTTCAAAGTGCACTTGATGGGTACAAGgtatgaatatttcactacaacaatgaagtattggtgaataatctgttcatgaggttcctgtctctaataactcaaatatcctaactttattttttttatt...

Basic information

species Oryza sativa
transcript LOC_Os04g53760.1
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g53760.2 (Oryza sativa), 5'ss of exon 11
lower sequence: GRMZM2G114861_T01 (Zea mays), 5'ss of exon 10
TTCCTTCTCATATGACAAAGTTTTCGATCACGGTGCTTCACAAGAAGATGTGTTTGTGGAAATGTCACAACTAGTTCAAAGTGCACTTGATGGGTACAAGgtatgaatatttcactacaacaatgaagtattggtgaataatctgttca-tgaggttcctgtctctaataactcaaatatcctaactttattttttttatt---
 ||||||||||||||||| ||||| || || ||||| ||||| |||||||||||||||||||| || |||||||| |||||||| ||||||||||||||||||  ||  | |    |  ||| | |  |  |  || ||| | | || | |  |  |  |     ||     | ||||||  |  |||||||      ||    
CTCCTTCTCATATGACAAGGTTTTTGACCATGGTGCGTCACAGGAAGATGTGTTTGTGGAAATATCGCAACTAGTCCAAAGTGCCCTTGATGGGTACAAGgtactaacttatg--catgaca-ttatatgctaatgtatagtatattaagtatgaattgtcatcttacctgttaaaatattgtc-ctttattcccaacatgatg

upper sequence: LOC_Os04g53760.2 (Oryza sativa), 5'ss of exon 11
lower sequence: GLYMA07G30580.1 (Glycine max), 5'ss of exon 10
TTCCTTCTCATATGACAAAGTTTTCGATCACGGTGCTTCACAAGAAGATGTGTTTGTGGAAATGTCACAACTAGTTCAAAGTGCACTTGATGGGTACAAGgtatgaatatttcactacaacaatgaagtattggtgaataatctgttcatgaggttcctgtctctaataactcaaatatcctaact-ttattttttttatt------
    ||| ||| |||||| || ||  |||| |  ||||| ||  | ||  | ||  | || || ||||| || |||||||||||||||||||| |||||||||  ||| ||  |||    |       | |||||  |  || ||      ||    | ||    |  ||   |  ||||  ||   |||        ||       
CAATTTCACATTTGACAAGGTGTTTAATCATGAGGCTTCTCAGCAGGACATTTTCATAGAGATATCACAGCTGGTTCAAAGTGCACTTGATGGCTACAAGgta--aat-ttctactttgcctcc----ttttggttcagtatgtgcctggcagaaaacggtaaacaggaaaataggtatcaaaatggttagcaacaagataatattg

upper sequence: LOC_Os04g53760.2 (Oryza sativa), 5'ss of exon 11
lower sequence: GLYMA12G16580.1 (Glycine max), 5'ss of exon 11
TTCCTTCTCATATGACAAAGTTTTCGATCACGGTGCTTCACAAGAAGATGTGTTTGTGGAAATGTCACAACTAGTTCAAAGTGCACTTGATGGGTACAAGgta---tgaatatttcacta-caacaatgaagtattggtgaat--aatctgttcatgaggttcctgtctctaataactcaaatatcctaactttattttttttatt
||| ||  ||| ||| ||||||||    |  |  || ||||||||||| || ||| | ||||| ||||| || || |||||||| |||||||| |||||||||   | ||  ||   ||  || |  | ||| | |  | | |  ||   ||  ||     |       | | | | |  | |||    | |  |||||       
TTCTTTTACATTTGATAAAGTTTTTACACCAGAGGCATCACAAGAAGAAGTTTTTCTAGAAATTTCACAGCTTGTACAAAGTGCTCTTGATGGTTACAAGgtaatttcaaagttcttctgtcatctctaaagcactattcatttaaaatcgtatatacatatggatcaaccatttaatgcactattactagtcaattttg------

upper sequence: LOC_Os04g53760.2 (Oryza sativa), 5'ss of exon 11
lower sequence: GLYMA06G41600.1 (Glycine max), 5'ss of exon 10
TTCCTTCTCATATGACAAAGTTTTCGATCACGGTGCTTCACAAGAAGATGTGTTTGTGGAAATGTCACAACTAGTTCAAAGTGCACTTGATGGGTACAAGgta---tgaatatttcacta-caacaatgaagtattggt------gaataatctgttcatgaggttc--ctgtctctaataactcaaatatcctaactttattttttttatt
| | ||  ||| ||| ||||||||    |  |  || ||||||||||| || ||||||||||| ||||| || || |||||||| |||||||| |||||||||   | ||  ||   ||  || |  | ||| | |  |       ||| |||  | ||| ||| ||  |  | ||  | |     | ||  | || |||            
TGCTTTTACATTTGATAAAGTTTTTACACCAGAGGCATCACAAGAAGAAGTTTTTGTGGAAATTTCACAGCTTGTGCAAAGTGCTCTTGATGGTTACAAGgtaatttaaaagttcttctgtcatctctaaagcactatttatttaaaatcatcaatacataaggatcaaccatttcacacactattactagtc-aattttg-----------

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|86829533|gb|CI286731.1|CI286731
EST:     TGTTTGTGGAAATGTCACAACTAGTTCAAAGTGCACTTGATGGGTACAAG                         GTTTGCATATTTGCTTATGGTCAAACAGGGTCTGGTAAAACTTATACAATG
genomic: TGTTTGTGGAAATGTCACAACTAGTTCAAAGTGCACTTGATGGGTACAAGgtatgaatat ... catgatgcagGTTTGCATATTTGCTTATGGTCAAACAGGGTCTGGTAAAACTTATACAATG