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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAATTGATAATGATGCAACAATTTGCTCTCCGCGAATCAAGAGAAGCACAAGACCCCCACAGGGCCATGAGACTGGACATTGACAATATGAGTTATGAGgtagaagagctggtttttgcttacatgcctcccaccctggaaacttgaaaatctattttcttaactctatcatttgctgtcaacag

Basic information

species Oryza sativa
transcript LOC_Os01g06590.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g06590.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G165044_T01 (Zea mays), 5'ss of exon 5
CAATTGATAATGATGCAACAATTTGCTCTCCGCGAATCAAGAGAAGCACAAG---ACCCCCACAGGGCCATGAGACTGGACATTGACAATATGAGTTATGAGgtagaaga----gctg-gtttttgct----tacatgcctcccaccctggaaacttgaaaatctattttcttaact----ctatcatttgctgtcaacag
     | | |||||| | || || |   ||  |||||| |||| ||||   |   |||||||||||| ||||||||||||||||||||| ||||| || ||||||   |      ||| ||||| |||        ||  ||     | ||||| ||  |||  | | ||  |||||     | |  |   | ||| | ||
---CGGTTCATGATGGACCACTTGGTCTTCTACGAATCGAGAGCAGCAGCTGCTGACCCCCACAGGGACATGAGACTGGACATTGACAACATGAGCTACGAGgtaagcggcggtactgcgttttcgctgttccgactgtgtcttgttccggaaattttgaaagatttcttagtaactaatgtttttgtcgtccgtccatag

upper sequence: LOC_Os01g06590.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G305901_T01 (Zea mays), 5'ss of exon 5
CAATTGATAATGATGCAACAATTTGCTCTCCGCGAATCAAGAGAAGCACAAG---ACCCCCACAGGGCCATGAGACTGGACATTGACAATATGAGTTATGAGgta-gaagagctggtttttgcttacatgcctcccaccctggaaacttgaaaatctattttc--ttaactctatcatttgctgtcaacag
     | | |||||| | || || |   |   ||||||||||| ||||   |   |||||||||||| ||||||||||||||| ||||| ||||| || |||||| | || ||||  | |||||  ||     |   | | |||||  |||| || |  || |   |||  | ||  || | ||||  |||
---CGGTTCATGATGGACCAGTTGGTCTTTTACGAATCAAGAGCAGCAGCCGCTGACCCCCACAGGGACATGAGACTGGACATCGACAACATGAGCTACGAGgtaaggagtgctgcatcttgctc-caactgccttgctccggaaatctgaagattttcttccaactaatacaatatttcgttgtcctcag
















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|29670363|gb|CB666638.1|CB666638
EST:     AAGACCCCCACAGGGCCATGAGACTGGACATTGACAATATGAGTTATGAG                         GACCTGCTGGCTTTGGGAGAATCTATTGGTAATGTCTGCACAGGCTTGGTG
genomic: AAGACCCCCACAGGGCCATGAGACTGGACATTGACAATATGAGTTATGAGgtagaagagc ... ctgtcaacagGACCTGCTGGCTTTGGGAGAATCTATTGGTAATGTCTGCACAGGCTTGGTG
EST: gi|88530273|gb|CI458653.1|CI458653
EST:     TTGACAATATGANTTATGAG                         GACCTGCTGGCTTTGGGAGAATCTATTGGTAATGTCTGCACAGGCTTGGTG
genomic: TTGACAATATGAGTTATGAGgtagaagagc ... ctgtcaacagGACCTGCTGGCTTTGGGAGAATCTATTGGTAATGTCTGCACAGGCTTGGTG
EST: gi|29629980|gb|CB634989.1|CB634989
EST:     AAGACCCCCACAGGGCCATGAGACTGGACATTGACAATATGAGTTATGAG                         GACCTGCTGGCTTTGGGAGAATCTATTGGTAATGTCTGCACAGGCTTGGTG
genomic: AAGACCCCCACAGGGCCATGAGACTGGACATTGACAATATGAGTTATGAGgtagaagagc ... ctgtcaacagGACCTGCTGGCTTTGGGAGAATCTATTGGTAATGTCTGCACAGGCTTGGTG
EST: gi|33682425|gb|CF310664.1|CF310664
EST:     AAGACCCCCACAGGGCCATGAGACTGGACATTGACAATATGAGTTATGAG                         GACCTGCTGGCTTTGGGAGAATCTATTGGTAATGTCTGCACAGGCTTGGTG
genomic: AAGACCCCCACAGGGCCATGAGACTGGACATTGACAATATGAGTTATGAGgtagaagagc ... ctgtcaacagGACCTGCTGGCTTTGGGAGAATCTATTGGTAATGTCTGCACAGGCTTGGTG
EST: gi|29622198|gb|CB627209.1|CB627209
EST:     AAGACCCCCACAGGGCCATGAGACTGGACATTGACAATATGAGTTATGAG                         GACCTGCTGGCTTTGGGAGAATCTATTGGTAATGTCTGCACAGGCTTGGTG
genomic: AAGACCCCCACAGGGCCATGAGACTGGACATTGACAATATGAGTTATGAGgtagaagagc ... ctgtcaacagGACCTGCTGGCTTTGGGAGAATCTATTGGTAATGTCTGCACAGGCTTGGTG
EST: gi|29669273|gb|CB665548.1|CB665548
EST:     AAGANNNNNNNAGGGCCATGAGACTGGACATTGACAATATGAGTTATGAG                         GACCTGCTGGCTTTGGGAGAATTTATTGGTAATGTCTGCACAGGCTTGGTG
genomic: AAGACCCCCACAGGGCCATGAGACTGGACATTGACAATATGAGTTATGAGgtagaagagc ... ctgtcaacagGACCTGCTGGCTTTGGGAGAATCTATTGGTAATGTCTGCACAGGCTTGGTG
EST: gi|3760896|gb|C98150.1|C98150
EST:     AAGACCCCCACAGGGCCATGAGACTGGACATTGACAATATGAGTTATGAG                         GACCTGCTGGCTTTGGGAGAATCTATTGGTAATGTCTGCACAGGCTTGGTG
genomic: AAGACCCCCACAGGGCCATGAGACTGGACATTGACAATATGAGTTATGAGgtagaagagc ... ctgtcaacagGACCTGCTGGCTTTGGGAGAATCTATTGGTAATGTCTGCACAGGCTTGGTG
EST: gi|88830640|gb|CI078084.1|CI078084
EST:     AAGACCCCCACAGGGCCATGAGACTGGACATCGACAATATGAGTTATGAG                         GACCTGCTGGCTTTGGGAGAATCTATTGGTAAAGTCTGCACAGGCTTGGTG
genomic: AAGACCCCCACAGGGCCATGAGACTGGACATTGACAATATGAGTTATGAGgtagaagagc ... ctgtcaacagGACCTGCTGGCTTTGGGAGAATCTATTGGTAATGTCTGCACAGGCTTGGTG
EST: gi|29684935|gb|CB681210.1|CB681210
EST:     AAGACCCCCACAGGGCCATGAGACTGGACATTGACAATATGAGTTATGAG                         GACCTGCTGGCTTTGGGAGAATCTATTGGTAATGTCTGCACAGGCTTGGTG
genomic: AAGACCCCCACAGGGCCATGAGACTGGACATTGACAATATGAGTTATGAGgtagaagagc ... ctgtcaacagGACCTGCTGGCTTTGGGAGAATCTATTGGTAATGTCTGCACAGGCTTGGTG
EST: gi|3760897|gb|C98151.1|C98151
EST:     AAGACCCCCACAGGGCCATGAGACTGGACATTGACAATATGAGTTATGAG                         GACCTGCTGGCTTTGGGAGAATCTATTGGTAATGTCTGCACAGGCTTGGTG
genomic: AAGACCCCCACAGGGCCATGAGACTGGACATTGACAATATGAGTTATGAGgtagaagagc ... ctgtcaacagGACCTGCTGGCTTTGGGAGAATCTATTGGTAATGTCTGCACAGGCTTGGTG
EST: gi|7839221|gb|AU090632.1|AU090632
EST:     AAGACCCCCACAGGGCCATGAGACTGGACATTGNCAATATGAGTTATGAG                         GACCTGCTGGCTTTGGGAGAATCTATTGGTAATGTCTGCACAGGCTTGNTG
genomic: AAGACCCCCACAGGGCCATGAGACTGGACATTGACAATATGAGTTATGAGgtagaagagc ... ctgtcaacagGACCTGCTGGCTTTGGGAGAATCTATTGGTAATGTCTGCACAGGCTTGGTG
EST: gi|29623670|gb|CB628681.1|CB628681
EST:     AAGACCCCCACAGGGCCATGAGACTGGACATTGACAATATGAGTTATGAG                         GACCTGCTGGCTTTGGGAGAATCTATTGGTAATGTCTGCACAGGCTTGGTG
genomic: AAGACCCCCACAGGGCCATGAGACTGGACATTGACAATATGAGTTATGAGgtagaagagc ... ctgtcaacagGACCTGCTGGCTTTGGGAGAATCTATTGGTAATGTCTGCACAGGCTTGGTG
EST: gi|88993479|gb|CI110300.1|CI110300
EST:     AAGACCCCCACAGGGCCATGAGACTGGACATTGACAATATGAGTTATGAG                         GACCTGCTGGCTTTGGGAGAATCTATTGGTAATGTCTGCACAGGCTTGGTG
genomic: AAGACCCCCACAGGGCCATGAGACTGGACATTGACAATATGAGTTATGAGgtagaagagc ... ctgtcaacagGACCTGCTGGCTTTGGGAGAATCTATTGGTAATGTCTGCACAGGCTTGGTG
EST: gi|88527686|gb|CI455863.1|CI455863
EST:     CAATATGAGTTATGAG                         GACCTGCTGGCTTTGGGAGAATCTATTGGTAATGTCTGCACAGGCTTGGTG
genomic: CAATATGAGTTATGAGgtagaagagc ... ctgtcaacagGACCTGCTGGCTTTGGGAGAATCTATTGGTAATGTCTGCACAGGCTTGGTG