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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGATCACTTGGCGATGATAACTGTGCAATCTGAAAACCTGTCAGAAAAGAAAACTTTTGATTGCAAGCCTCTTGGTGTCATTTGGGCTCAGTTCCCCGAGgttagtagtggcgtggtactgtgaatttgtgactgattctcattgaattatttgctcattgcttctgtttctttcatatgcag

Basic information

species Oryza sativa
transcript LOC_Os01g65450.2
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g65450.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G427526_T01 (Zea mays), 5'ss of exon 1
GGATCACTTGGCGATGATAACTGTGCAATCTGAAAACCTGTCAGAAAAGAAAACTTTTGATTGCAAGCCTCTTGGTGTCATTTGGGCTCAGTTCCCCGAGgttagta--------------gtggc-gtggtac--------tgtgaatttgtgactgattctcattgaattatttgctcattgcttctgtttctttcatatgcag-------------------------------------------------------------------------
|||||||||||| ||||||||||||||  ||||||| |       ||| || | |||| | ||||||||||||||||||||||||||||||||||| ||||||||||              |||   ||| |||        ||||||  || |   | | |||||  |||| |||||   ||||| |||| |    |||||||||                                                                         
GGATCACTTGGCTATGATAACTGTGCAGCCTGAAAATCGAAGTAGAAACAAGATTTTTCACTGCAAGCCTCTTGGTGTCATTTGGGCTCAGTTCCCTGAGgttagtattctatttatttctgtgcttgtgttaccaatttaatgtgaaactgggttaggtcctcatctaattctttgccgcttgctcctgtcttccccatatgcagtagcctgtactacaacgaaaagaacaccatcatgtttgatgatctaagaaggaatttcgtcatgaatccacag

upper sequence: LOC_Os01g65450.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G114172_T03 (Zea mays), 5'ss of exon 4
GGATCACTTGGCGATGATAACTGTGCAATCTGAAAACCTGTCAGAAAAGAAAACTTTTGATTGCAAGCCTCTTGGTGTCATTTGGGCTCAGTTCCCCGAGgttagta----------gtgg-cgtggtac--------tgtgaatttgtgactgattctcattgaattatttgctcattgcttctgtttctttcatatgcag
|||||||||||| ||||||||||||||||||||||| |       |||||| |||||||| ||||||||||||||||||||||||||||||||||| ||||||||||          |||  |||  |||        |||| |  ||||   | |  ||||  ||||  ||||   ||||| |||| |  | |||||||||
GGATCACTTGGCTATGATAACTGTGCAATCTGAAAATCAAAGTAGAAAGAAGACTTTTGACTGCAAGCCTCTTGGTGTCATTTGGGCTCAGTTCCCTGAGgttagtactctatttctgtgctcgtattaccaatttaatgtggacctgtgttaggtcttcatctaattccttgccgcttgctcctgtcttctccatatgcag

upper sequence: LOC_Os01g65450.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA08G13320.1 (Glycine max), 5'ss of exon 5
---------GGATCACTTGGCGATGATAACTGTGCAATCTGAAAACCTGTCAGAAAAGAAAACTTTTGATTGCAAGCCTCTTGGTGTCATTTGGGCTCAGTTCCCCGAGgttagtagtggcgtggtactgtgaatttgtgactgattctc---attgaa--ttatttgctcattgct--tctgtttctttcat-atgcag------------
          || ||| |||| ||||| || || ||  ||     | | ||             ||||||||||||||||||||| | || |||||| ||||||| ||||| | || |   |   ||   | ||   |  | | ||| ||   || |||  ||| | |     || |    | ||| ||  || || ||             
CGCACTTCTTGACCACATGGCAATGATCACGGTTCAGACTT----CTTCTCGTG-----GGGTCTTTGATTGCAAGCCTCTTGGTTTGATCTGGGCTAAGTTCCCTGAGgt-aata-ttatgcaataaaat-aacacgccatttattttcttaatggaaagttaatagaattatgttagcatatttgttcaatcatacactcccccgtctac

upper sequence: LOC_Os01g65450.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA05G30160.1 (Glycine max), 5'ss of exon 5
---------GGATCACTTGGCGATGATAACTGTGCAATCTGAAAACCTGTCAGAAAAGAAAACTTTTGATTGCAAGCCTCTTGGTGTCATTTGGGCTCAGTTCCCCGAGgt-tagtagtgg-cgtggtactgtgaatt----tgtgactgattctc---attgaa--ttatttgctcattgct--tctgtttctttcat-atgcag---
          || ||| |||| ||||| || || ||  ||     | | ||             ||||||||||||||||||||| | || |||||| ||||||| ||||| || |  ||    |  | |  | || |    ||  | | ||| ||   || |||  |||   |     || |    | ||| ||  || || ||    
CGCACTTCTTGACCACATGGCAATGATCACGGTTCAGACTT----CTTCTCGTG-----GGGTCTTTGATTGCAAGCCTCTTGGTTTGATCTGGGCTAAGTTCCCTGAGgtataattatgaatattatgcaataaactaacatgccatttattttcttaatggaaagttaacaggagtatgttagcatatttgttcaatcatacattgc

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|86495698|gb|CI138331.1|CI138331
EST:     AAACTTTTGATTGCAAGCCTCTTGGTGTCATTTGGGCTCAGTTCCCCGAG                         TACAATGAAACAAACACAATCATGTTTGATGACCTCAGAAGGAACTTTGTC
genomic: AAACTTTTGATTGCAAGCCTCTTGGTGTCATTTGGGCTCAGTTCCCCGAGgttagtagtg ... tcatatgcagTACAATGAAACAAACACAATCATGTTTGATGACCTCAGAAGGAACTTTGTC
EST: gi|86527359|gb|CI167565.1|CI167565
EST:     AAACTTTTGATTGCAAGCCTCTTGGTGTCATTTGGGCTCAGTTCCCCGAG                         TACAATGAAACAAACACAATCATGTTTGATGACCTCAGAAGGAACTTTGTC
genomic: AAACTTTTGATTGCAAGCCTCTTGGTGTCATTTGGGCTCAGTTCCCCGAGgttagtagtg ... tcatatgcagTACAATGAAACAAACACAATCATGTTTGATGACCTCAGAAGGAACTTTGTC
EST: gi|33819320|gb|CF335480.1|CF335480
EST:     AAACTTTTGATTGCAAGCCTCTTGGTGTCATTTGGGCTCAGTTCCCCGAG                         TACAATGAAACAAACACAATCATGTTTGATGACCTCAGAAGGAACTTTGTC
genomic: AAACTTTTGATTGCAAGCCTCTTGGTGTCATTTGGGCTCAGTTCCCCGAGgttagtagtg ... tcatatgcagTACAATGAAACAAACACAATCATGTTTGATGACCTCAGAAGGAACTTTGTC
EST: gi|86495747|gb|CI138380.1|CI138380
EST:     AAACTTTTGATTGCAAGCCTCTTGGTGTCATTTGGGCTCAGTTCCCCGAG                         TACAATGAAACAAACACAATCATGTTTGATGACCTCAGAAGGAACTTTGTC
genomic: AAACTTTTGATTGCAAGCCTCTTGGTGTCATTTGGGCTCAGTTCCCCGAGgttagtagtg ... tcatatgcagTACAATGAAACAAACACAATCATGTTTGATGACCTCAGAAGGAACTTTGTC
EST: gi|86539775|gb|CI179981.1|CI179981
EST:     AGTTCCCCGAG                         TACAATGAAACATACACAATCATGTTTGATGACCTCAGAAGGAACTTTGTC
genomic: AGTTCCCCGAGgttagtagtg ... tcatatgcagTACAATGAAACAAACACAATCATGTTTGATGACCTCAGAAGGAACTTTGTC
EST: gi|86434177|gb|CI094520.1|CI094520
EST:     AAACTTTTGATTGCAAGCCTCTTGGTGTCATTTGGGCTCAGTTCCCCGAG                         TACAATGAAACAAACACAATCATGTTTGATGACCTCAGAAGGAACTTTGTC
genomic: AAACTTTTGATTGCAAGCCTCTTGGTGTCATTTGGGCTCAGTTCCCCGAGgttagtagtg ... tcatatgcagTACAATGAAACAAACACAATCATGTTTGATGACCTCAGAAGGAACTTTGTC
EST: gi|86543608|gb|CI183814.1|CI183814
EST:     AGTTCCCCGAG                         TACAATGAAACAAACACTATCATGTTTGATGACCTCAGAAGGAACTTTGTC
genomic: AGTTCCCCGAGgttagtagtg ... tcatatgcagTACAATGAAACAAACACAATCATGTTTGATGACCTCAGAAGGAACTTTGTC
EST: gi|29676776|gb|CB673051.1|CB673051
EST:     AAACTTTTGATTGCAAGCCTCTTGGTGTCATTTGGGCTCAGTTCCCCGAG                         TACAATGAAACAAACACAATCATGTTTGATGACCTCAGAAGGAACTTTGTC
genomic: AAACTTTTGATTGCAAGCCTCTTGGTGTCATTTGGGCTCAGTTCCCCGAGgttagtagtg ... tcatatgcagTACAATGAAACAAACACAATCATGTTTGATGACCTCAGAAGGAACTTTGTC
EST: gi|88226719|gb|CI226635.1|CI226635
EST:     AAACTTTTGATTGCAAGCCTCTTGGTGTCATTTGGGCTCAGTTCCCCGAG                         TACAATGAAACAAACACAATCATGTTTGATGACCTCAGAAGGAACTTTGTC
genomic: AAACTTTTGATTGCAAGCCTCTTGGTGTCATTTGGGCTCAGTTCCCCGAGgttagtagtg ... tcatatgcagTACAATGAAACAAACACAATCATGTTTGATGACCTCAGAAGGAACTTTGTC
EST: gi|89181139|gb|CI045222.1|CI045222
EST:     AAACTTTTGATTGCAAGCCTCTTGGTGTCATTTGGGCTCAGTTCCCCGAG                         TACAATGAAACAAACACAATCATGTTTGATGACCTCAGAAGGAACTTTGTC
genomic: AAACTTTTGATTGCAAGCCTCTTGGTGTCATTTGGGCTCAGTTCCCCGAGgttagtagtg ... tcatatgcagTACAATGAAACAAACACAATCATGTTTGATGACCTCAGAAGGAACTTTGTC
EST: gi|87007353|gb|CI279024.1|CI279024
EST:     AAACTTTTGATTGCAAGCCTCTTGGTGTCATTTGGGCTCAGTTCCCCGAG                         TACAATGAAACAAACACAATCATGTTTGATGACCTCAGAAGGAACTTTGTC
genomic: AAACTTTTGATTGCAAGCCTCTTGGTGTCATTTGGGCTCAGTTCCCCGAGgttagtagtg ... tcatatgcagTACAATGAAACAAACACAATCATGTTTGATGACCTCAGAAGGAACTTTGTC
EST: gi|29685722|gb|CB681997.1|CB681997
EST:     AAACTTTTGATTGCAAGCCTCTTGGTGTCATTTGGGCTCAGTTCCCCGAG                         TACAATGAAACAAACACAATCATGTTTGATGACCTCAGAAGGAACTTTGTC
genomic: AAACTTTTGATTGCAAGCCTCTTGGTGTCATTTGGGCTCAGTTCCCCGAGgttagtagtg ... tcatatgcagTACAATGAAACAAACACAATCATGTTTGATGACCTCAGAAGGAACTTTGTC
EST: gi|87032305|gb|CI264086.1|CI264086
EST:     TTGATTGCAAGCCTCTTGGTGTCATTTGGGCTCAGTTCCCCGAG                         TACAATGAAACAAACACAATCATGTTTGATGACCTCAGAAGGAACTTTGTC
genomic: TTGATTGCAAGCCTCTTGGTGTCATTTGGGCTCAGTTCCCCGAGgttagtagtg ... tcatatgcagTACAATGAAACAAACACAATCATGTTTGATGACCTCAGAAGGAACTTTGTC