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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCATTGGACACCTTTAATACAGCAGTTGTCTCACCAATATATTACGTGATGTTTACTTCACTAACAATTTTAGCCAGTGTGATAATGTTTAAGgtaagctttttctatcacttccattaggcattcagcccttatacactcaactttcttgttgcagaaagctatgaacaatttttttttttggcttaatgtg...

Basic information

species Oryza sativa
transcript LOC_Os11g09140.2
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g09140.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G104147_T04 (Zea mays), 5'ss of exon 1
-------GCATTGGACACCTTTAATACAGCAGTTGTCTCACCAATATATTACGTGATGTTTACTTCACTAACAATTTTAGCCAGTGTGATAATGTTTAAGgtaagctttttctatcacttccattaggcatt-----cagcccttatacactcaac-tttcttgttgcagaaagctatgaacaatttttttttttggcttaatgtg
       ||| |||| || |||||||||||||| ||||||||||||||||||||||||||||| |||||||||||| |||| |||||||||||||| ||||||| |   || ||| |||| ||| ||  | |     ||    || |  | | ||   || |||||| | ||||||| |||  |||   ||  ||||  |  ||  
ATTGCAGGCACTGGATACATTTAATACAGCAGTAGTCTCACCAATATATTACGTGATGTTTACATCACTAACAATTATAGCTAGTGTGATAATGTTCAAGgtaa-cccattttattactttcatgagcaactattatcatttattgttaagtgaatgctttttgttgaaaaaagctaagaa--attcacttgcttggtgtt-tg--

upper sequence: LOC_Os11g09140.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G129268_T01 (Zea mays), 5'ss of exon 7
GCATTGGACACCTTTAATACAGCAGTTGTCTCACCAATATATTACGTGATGTTTACTTCACTAACAATTTTAGCCAGTGTGATAATGTTTAAGgtaagctttttctatcacttccattaggcatt--------cagcccttatacactcaactttcttgttgcagaaagctatgaacaatttttttttttggcttaatgtg
|||||||| || |||||||||||||| ||||||||||||||||| |||||||||||||||||||||||| ||||||||||||||||||| ||||||| |   || ||| |||| ||| ||  | |              || |  | | ||  || ||||  ||  |   ||||        |||| ||    | |     
GCATTGGATACATTTAATACAGCAGTAGTCTCACCAATATATTATGTGATGTTTACTTCACTAACAATTATAGCCAGTGTGATAATGTTCAAGgtaa-cccattttattactttcatgagaaactattgtcatttattgttgttaagtgaatgtttttgt--caatatattatgtgttcccattttattactttca-----

upper sequence: LOC_Os11g09140.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G104147_T03 (Zea mays), 5'ss of exon 7
GCATTGGACACCTTTAATACAGCAGTTGTCTCACCAATATATTACGTGATGTTTACTTCACTAACAATTTTAGCCAGTGTGATAATGTTTAAGgtaagctttttctatcacttccattaggcatt-----cagcccttatacactcaac-tttcttgttgcagaaagctatgaacaatttttttttttggcttaatgtg
||| |||| || |||||||||||||| ||||||||||||||||||||||||||||| |||||||||||| |||| |||||||||||||| ||||||| |   || ||| |||| ||| ||  | |     ||    || |  | | ||   || |||||| | ||||||| |||  |||   ||  ||||  |  ||  
GCACTGGATACATTTAATACAGCAGTAGTCTCACCAATATATTACGTGATGTTTACATCACTAACAATTATAGCTAGTGTGATAATGTTCAAGgtaa-cccattttattactttcatgagcaactattatcatttattgttaagtgaatgctttttgttgaaaaaagctaagaa--attcacttgcttggtgtt-tg--

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|38481686|gb|CF965768.1|CF965768
EST:     ACGTGATGTTTACTTCGCTAACAATTTTAGCCAGTGTGATAATGTTCAAG                         GATTGGGATCGACAAAATCCAACACAAATTGTCACGGAGCTGTGTGGTTTT
genomic: ACGTGATGTTTACTTCACTAACAATTTTAGCCAGTGTGATAATGTTTAAGgtaagctttt ... ttacgtgcagGATTGGGATCGACAAAATCCAACACAAATTGTCACGGAGCTGTGTGGTTTT
EST: gi|33678556|gb|CF306795.1|CF306795
EST:     ACGTGATGTTTACTTCACTAACAATTTTAGCCAGTGTGATAATGTTTAAG                         GATTGGGATCGACAAAATCCAACACAAATTGTCACGGAGCTGTGTGGTTTT
genomic: ACGTGATGTTTACTTCACTAACAATTTTAGCCAGTGTGATAATGTTTAAGgtaagctttt ... ttacgtgcagGATTGGGATCGACAAAATCCAACACAAATTGTCACGGAGCTGTGTGGTTTT