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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaattctttttcctttcttccaattaattattcgactgactatttgacatgtttttccccactcggtaatctttatgaacaaatgcagCTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTAATATTGTTCATAGCACAGTCGATAACTAATGCCATAGTGAACGACTTCT

Basic information

species Oryza sativa
transcript LOC_Os03g64020.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g64020.2 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM5G896082_T03 (Zea mays), 3'ss of exon 7
-gtaaattctttttcctttcttccaattaattat--tcgactgactatttga----catgtttttcccc-----actcggtaatctttatgaacaaatgcagCTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTAATATTGTTCATAGCACAGTCGATAACTAATGCCATAGTGAACGACTTCT
  |    |  |||     |     ||||| | ||  |  | | | |  |  |    ||  || |||  |     |||| | | ||||  | || || |||||||||||||||||||||| ||||||||||||||||||||||||||||| |||||||||||| |||| |||||  | ||||| || |||||  | || || |
tctctgctggtttctggataaaaaaattattcatgcttaagtcattggtcaagatccacattcttcttctgctaactctgca-tcttcttcaataa-tgcagCTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTTGCCCCTAATATTGTTCTTAGCGCAGTCATTGACTAAGGCTATAGTCCAGGATTTTT

upper sequence: LOC_Os03g64020.2 (Oryza sativa), 3'ss of exon 5
lower sequence: AC203966.5_FGT002 (Zea mays), 3'ss of exon 6
----------gtaaattctttttcctttcttccaattaa-ttattcgactgactatttgacatgtttttccccactcggtaatctttatgaacaaatgcagCTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTAATATTGTTCATAGCACAGTCGATAACTAATGCCATAGTGAACGACTTCT
          ||  ||      |  ||   |    |||| | ||| | |    |      | |  || |    |||| | | ||||  |||| || |||||||||||||||||||||| ||||||||||||||||||||||||||||| |||||||||||| ||||||||||  | ||||| || |||||  | ||||| |
ctgctggtttgtggataaaaaataattatctatgcttaagtcattggtcaaggtccacatccttcttctgttaactctgcattcttcttgaataa-tgcagCTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTTGCCCCTAATATTGTTCTTAGCACAGTCATTGACTAAGGCTATAGTCCAGGACTTTT

upper sequence: LOC_Os03g64020.2 (Oryza sativa), 3'ss of exon 5
lower sequence: GLYMA05G03730.1 (Glycine max), 3'ss of exon 7
gtaaattctttttcctttcttccaattaattattcgactgactatttgacatgtttttccccact----------cggtaatctttatgaac----aaatgcagCTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTAATATTGTTCATAGCACAGTCGATAACTAATGCCATAGTGAACGACTTCT
    ||||||         |   ||| || || |    | |  |||  | |   || |  | | |              |    |||||||      | |||||||||| ||||||||  ||||||||||||| |||||||||||| | || || ||  |||  ||||| | |||  |||| |||||||| || || |||||  
----attcttcacatcacatagaaatgaaatagtttcttaaacattaaagaatattattacaattaatgcaattataacagatgttatgaattgttgagtgcagCTGCCGGAGCCTTTTAGTTTCATTTTCACTTGGTTTGCTGCTGTTCCCCTCATTGTGTGGATAGCTCTGTCACTAACAAATGCCATTGTAAAAGACTTTG

upper sequence: LOC_Os03g64020.2 (Oryza sativa), 3'ss of exon 5
lower sequence: GLYMA17G14240.1 (Glycine max), 3'ss of exon 7
gtaaattctttttcctttcttccaattaattattcgactgactatttgacatgtttttccccact----------cggtaatctttatgaac----aaatgcagCTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTAATATTGTTCATAGCACAGTCGATAACTAATGCCATAGTGAACGACTTCT
    ||||||         |   ||| || || |    |    ||| || |   || |  | | |              |    |||||||      | |||||||||| ||||||||  ||||||||||||| |||||||||||| | || || ||  |||  ||||| | |||  | || |||||||| || || |||||  
----attcttcacatcacatagaaatgaaatagtttcttagacattagaaaatattattacaattaatgcaattataacagatgttatgaattgttgagtgcagCTGCCGGAGCCTTTTAGTTTCATTTTCACTTGGTTTGCTGCTGTTCCCCTCATTGTGTGGATAGCTCTGTCACTGACAAATGCCATTGTAAAAGACTTTG

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|86255079|gb|CI061984.1|CI061984
EST:     GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAG                         CTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
genomic: GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAGgtaaattctt ... acaaatgcagCTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
EST: gi|38475301|gb|CF959434.1|CF959434
EST:     GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAG                         CTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
genomic: GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAGgtaaattctt ... acaaatgcagCTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
EST: gi|86597983|gb|CI278373.1|CI278373
EST:     GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAG                         CTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
genomic: GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAGgtaaattctt ... acaaatgcagCTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
EST: gi|117243743|gb|CT843209.1|CT843209
EST:     GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAG                         CTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
genomic: GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAGgtaaattctt ... acaaatgcagCTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
EST: gi|58589439|gb|CF987747.1|CF987747
EST:     GTTCTTCTTCATCGATGAGTGGACTGGCTTTGAGATCAACATATTCCAG                         CTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
genomic: GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAGgtaaattctt ... acaaatgcagCTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
EST: gi|88995899|gb|CI037190.1|CI037190
EST:     TTGACTGGCTTTGAGATCGACATATTCCAG                         CTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
genomic: TTGACTGGCTTTGAGATCAACATATTCCAGgtaaattctt ... acaaatgcagCTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
EST: gi|58030632|gb|CX728175.1|CX728175
EST:     GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAG                         CTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
genomic: GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAGgtaaattctt ... acaaatgcagCTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
EST: gi|38475842|gb|CF959975.1|CF959975
EST:     GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAG                         CTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTGGGCTCTA
genomic: GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAGgtaaattctt ... acaaatgcagCTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
EST: gi|29687940|gb|CB684215.1|CB684215
EST:     GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAG                         CTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
genomic: GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAGgtaaattctt ... acaaatgcagCTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
EST: gi|29687939|gb|CB684214.1|CB684214
EST:     GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAG                         CTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
genomic: GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAGgtaaattctt ... acaaatgcagCTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
EST: gi|29682412|gb|CB678687.1|CB678687
EST:     GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAG                         CTGCCAGAGCCTTTCAGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
genomic: GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAGgtaaattctt ... acaaatgcagCTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gactgactatttgacatgtttttccccactcggtaatctttatgaacaaatgcagCTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTAATATTGTTCATAGCACAGTCGATAACTAATGCCATAGTGAACGACTTCT
                                 taatctttat  TA-rich tract