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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGGGATTGTGGCATGTTCATGCTCAAATACATAGATTTCTACAGCAGAGATATGGGCCTTACTTTTGGACAGgtaccaaattggatcttgcgcttcctgccaatttatatgctctacttggaagaagttaaaatggaatttatgatttttttttcaagtgaaattaactggttttgaaattggttgtctttcatag

Basic information

species Oryza sativa
transcript LOC_Os01g25370.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g25370.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G012601_T02 (Zea mays), 5'ss of exon 8
---------------------------GTGGGATTGTGGCATGTTCATGCTCAAATACATAGATTTCTACAGCAGAGATATGGGCCTTACTTTTGGACAGgtaccaaattggatcttgcgcttcctgccaatttatatgctctacttggaagaagttaaaatggaatt-tatgatttttttttcaagtgaaattaactggttttgaaattggttgtctttcatag
                            ||||| |||||||||||||||||||||||||| || ||||||||||||||||||| ||| | |||||||||||||  | ||||    |  |  || ||   |||  ||||| | ||  || || ||| | |||   ||||  |||   ||| |                                            
GCCTAATGTACTGAGTCTGTCACTTAGATGGGACTGTGGCATGTTCATGCTCAAATACATTGACTTCTACAGCAGAGATATGGACCTCATTTTTGGACAGgtaatacattg----tctcattttctcataatggatatgatgtatctgcaa-aagctgaaacaaaattgcatgcactttgtag------------------------------------------

upper sequence: LOC_Os01g25370.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G088653_T03 (Zea mays), 5'ss of exon 8
GTGGGATTGTGGCATGTTCATGCTCAAATACATAGATTTCTACAGCAGAGATATGGGCCTTACTTTTGGACAGgtaccaaattggatcttgcgcttcctgccaatttatatgctctacttggaagaagttaaaatggaatt-tatgatttttttttcaagtgaaattaactggttttgaaattggttgtctttcatag
 ||||| || |||||||| |||||||||||||| || ||||||||||||||||||| ||| | ||| |||||||||  |  |||  | |     ||||    |||  ||||| | ||  || || ||||| |||   |||| ||||  |||| |                                            
ATGGGACTGCGGCATGTTTATGCTCAAATACATTGACTTCTACAGCAGAGATATGGACCTCATTTTCGGACAGgtaatacgttgtctatcatttttcccat-aatggatatgatgtatctgcaa-aagttgaaacaaaattgtatgcattttgtag------------------------------------------

upper sequence: LOC_Os01g25370.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G012601_T01 (Zea mays), 5'ss of exon 8
GTGGGATTGTGGCATGTTCATGCTCAAATACATAGATTTCTACAGCAGAGATATGGGCCTTACTTTTGGACAGgtaccaaattggatcttgcgcttcctgccaatttatatgctctacttggaagaagttaaaatggaatt-tatgatttttttttcaagtgaaattaactggttttgaaattggttgtctttcatag
 ||||| |||||||||||||||||||||||||| || ||||||||||||||||||| ||| | |||||||||||||  | ||||    |  |  || ||   |||  ||||| | ||  || || ||| | |||   ||||  |||   ||| |                                            
ATGGGACTGTGGCATGTTCATGCTCAAATACATTGACTTCTACAGCAGAGATATGGACCTCATTTTTGGACAGgtaatacattg----tctcattttctcataatggatatgatgtatctgcaa-aagctgaaacaaaattgcatgcactttgtag------------------------------------------

upper sequence: LOC_Os01g25370.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G088653_T04 (Zea mays), 5'ss of exon 1
---------------------------GTGGGATTGTGGCATGTTCATGCTCAAATACATAGATTTCTACAGCAGAGATATGGGCCTTACTTTTGGACAGgtaccaaattggatcttgcgcttcctgccaatttatatgctctacttggaagaagttaaaatggaatt-tatgatttttttttcaagtgaaattaactggttttgaaattggttgtctttcatag
                            ||||| || |||||||| |||||||||||||| || ||||||||||||||||||| ||| | ||| |||||||||  |  |||  | |     ||||    |||  ||||| | ||  || || ||||| |||   |||| ||||  |||| |                                            
AATGTACTGAGTCTTCTGTCACCCTAGATGGGACTGCGGCATGTTTATGCTCAAATACATTGACTTCTACAGCAGAGATATGGACCTCATTTTCGGACAGgtaatacgttgtctatcatttttcccat-aatggatatgatgtatctgcaa-aagttgaaacaaaattgtatgcattttgtag------------------------------------------

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|29623085|gb|CB628096.1|CB628096
EST:     TCAAATACATAGATTTCTACAGCAGAGATATGGGCCTTACTTTTGGACAG                         AAACATATGCATTACTTTCGGAAGAGGACTGCCAAGGAAATTTTGAATTTG
genomic: TCAAATACATAGATTTCTACAGCAGAGATATGGGCCTTACTTTTGGACAGgtaccaaatt ... tctttcatagAAACATATGCATTACTTTCGGAAGAGGACTGCCAAGGAAATTTTGAATTTG
EST: gi|33692526|gb|CF320765.1|CF320765
EST:     TCAAATACATAGATTTCTACAGCAGAGATATGGGCCTTACTTTTGGACAG                         AAACATATGCATTACTTTCGGAAGAGGACTGCCAAGGAAATTTTGAATTTG
genomic: TCAAATACATAGATTTCTACAGCAGAGATATGGGCCTTACTTTTGGACAGgtaccaaatt ... tctttcatagAAACATATGCATTACTTTCGGAAGAGGACTGCCAAGGAAATTTTGAATTTG
EST: gi|11172767|gb|AU164448.1|AU164448
EST:     GAGATATGGCCCTTACTTTTGGACAG                         AAACATATGCATTACTTTCGGAAGAGGACTGCCAAGGAAATTTTGAATTTG
genomic: GAGATATGGGCCTTACTTTTGGACAGgtaccaaatt ... tctttcatagAAACATATGCATTACTTTCGGAAGAGGACTGCCAAGGAAATTTTGAATTTG
EST: gi|218485916|gb|FG967011.1|FG967011
EST:     TCAAATACATAGATTTCTACAGCAGAGATATGGGCCTTACTTTTGGACAG                         AAACATATGCATTACTTTCGGAAGAGGACTGCCAAGGAAATTTTGAATTTG
genomic: TCAAATACATAGATTTCTACAGCAGAGATATGGGCCTTACTTTTGGACAGgtaccaaatt ... tctttcatagAAACATATGCATTACTTTCGGAAGAGGACTGCCAAGGAAATTTTGAATTTG
EST: gi|29662159|gb|CB658434.1|CB658434
EST:     TCAAATACATAGATTTCTACAGCAGAGATATGGGCCTTACTTTTGGACAG                         AAACATATGCATTACTTTCGGAAGAGGACTGCCAAGGAAATTTTGAATTTG
genomic: TCAAATACATAGATTTCTACAGCAGAGATATGGGCCTTACTTTTGGACAGgtaccaaatt ... tctttcatagAAACATATGCATTACTTTCGGAAGAGGACTGCCAAGGAAATTTTGAATTTG
EST: gi|29662158|gb|CB658433.1|CB658433
EST:     TCAAATACATAGATTTCTACAGCAGAGATATGGGCCTGACTTTTGGACAG                         AAACATATGCAT
genomic: TCAAATACATAGATTTCTACAGCAGAGATATGGGCCTTACTTTTGGACAGgtaccaaatt ... tctttcatagAAACATATGCAT
EST: gi|33692527|gb|CF320766.1|CF320766
EST:     TCAAATACATAGATTTCTACAGCAGAGATATGGGCCTTACTTTTGGACAG                         AAACATATGCATTACTTTCGGAAGAGGACTGCCAAGGAAATTTTGAATTTG
genomic: TCAAATACATAGATTTCTACAGCAGAGATATGGGCCTTACTTTTGGACAGgtaccaaatt ... tctttcatagAAACATATGCATTACTTTCGGAAGAGGACTGCCAAGGAAATTTTGAATTTG
EST: gi|4714382|gb|AU058349.1|AU058349
EST:     GAGATATGGGCCTTACTTTTGGACAG                         AAACATATGCATTACTTTCGGAAGAGGACTGCCAAGGAAATTTTGAATTTG
genomic: GAGATATGGGCCTTACTTTTGGACAGgtaccaaatt ... tctttcatagAAACATATGCATTACTTTCGGAAGAGGACTGCCAAGGAAATTTTGAATTTG
EST: gi|218499890|gb|FG958714.1|FG958714
EST:     TCAAATACATAGATTTCTACAGCAGAGATATGGGCCTTACTTTTGGACAG                         AAACATATGCATTACTTTCGGAAGAGGACTGCCAAGGAAATTTTGAATTTG
genomic: TCAAATACATAGATTTCTACAGCAGAGATATGGGCCTTACTTTTGGACAGgtaccaaatt ... tctttcatagAAACATATGCATTACTTTCGGAAGAGGACTGCCAAGGAAATTTTGAATTTG
EST: gi|58590052|gb|CF988360.1|CF988360
EST:     TCAAATACATAGATTTCTACAGCAGAGATATGGGCCTTACTTTTGGACAG                         AAACATATGCATTACTTTCGGAAGA
genomic: TCAAATACATAGATTTCTACAGCAGAGATATGGGCCTTACTTTTGGACAGgtaccaaatt ... tctttcatagAAACATATGCATTACTTTCGGAAGA