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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tggtccctgttgcaaaatctttttgttgtcataaagtaatagtcactggaggcattgtatgctgtacataccctcacaataacgatgacttgcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGAAATGCCAATCCCTTCAGCGATCAAAACAAATCTGTTTCAGTGACAACGC

Basic information

species Oryza sativa
transcript LOC_Os01g61500.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g61500.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G046418_T01 (Zea mays), 3'ss of exon 3
tggtccctgttgcaaaatctttttgttgtcataaagtaatagtcactggaggcattgtat--gctgtacataccctcacaataacgatgactt--gcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGAAATGCCAATCCCTTCAGCGATCAAAACAAATCTGTTTCAGTGACAACGC
      ||| |         ||  | ||| || |  |  | | | ||   | ||   ||   | ||         || | ||    |  ||||   |||  ||||| ||||| |||||    ||||||||||| |||||||||||||||||||||||||| || || ||||||||||| |||||  ||||||||||||| ||||
---catctgatagtccgcacttacgatgttattac-tgttggcctctaaggacaaactaccagttgcttgatttatctctatgttcaatacttcaacatgtcagGTCCGCCGAGTCCAGTCCCTTGTGGAGACCTTGGATAAGCTGAAGGCAAGAAATGCGAACCCTTTCAGCGATCATAACAACGCTGTTTCAGTGACGACGC

upper sequence: LOC_Os01g61500.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G014720_T01 (Zea mays), 3'ss of exon 3
----tggtccctgttgcaaaatctttttgttgtcataaagtaatagtcactggaggcattgtatgctgtacataccctcacaataacgatgactt--gcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGAAATGCCAATCCCTTCAGCGATCAAAACAAATCTGTTTCAGTGACAACGC
    ||||| || |  ||||    |||   | |  ||||  || |  | ||     |||  |||        |  ||| | |      |  ||||   |||  ||||| ||||| || ||    ||||||||||| |||||||||||||| ||||||||||| || |||||||||||||| || ||  |||||||||| |||||||
gtgttggtctctatgacaaa-cggtttaactatagtaaaaaaaaacacgct-----catcttatagaaccagttgcctgatatagctcaatacttcaacatctcagGTGCGCCGAGTTCAGTCCCTTGTGGAGACCTTGGATAAGCTGAAAGCAAGAAATGCAAACCCCTTCAGCGATCATAATAAGGCTGTTTCAGTAACAACGC
















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|86415279|gb|CI069682.1|CI069682
EST:     TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGGAGGCTGAG                         GTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
genomic: TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAGgtacagtggc ... tgcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
EST: gi|88850183|gb|CI091676.1|CI091676
EST:     TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAG                         GTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
genomic: TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAGgtacagtggc ... tgcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
EST: gi|33675385|gb|CF303624.1|CF303624
EST:     TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAG                         GTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
genomic: TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAGgtacagtggc ... tgcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
EST: gi|33676925|gb|CF305164.1|CF305164
EST:     AGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAG                         GTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
genomic: AGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAGgtacagtggc ... tgcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
EST: gi|88475199|gb|CI412470.1|CI412470
EST:     TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAG                         GTACGCCGTGGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAG
genomic: TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAGgtacagtggc ... tgcattgcagGTACGCCGT-GTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAG
EST: gi|33676487|gb|CF304726.1|CF304726
EST:     TGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAG                         GTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
genomic: TGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAGgtacagtggc ... tgcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
EST: gi|86542293|gb|CI182499.1|CI182499
EST:     TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAG                         GTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
genomic: TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAGgtacagtggc ... tgcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
EST: gi|88469155|gb|CI406426.1|CI406426
EST:     TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAG                         GTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
genomic: TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAGgtacagtggc ... tgcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
EST: gi|88477386|gb|CI414657.1|CI414657
EST:     GGAGAAGCAAGGGCACAAAGGAAGGCTGAG                         GTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
genomic: GGAGAAGCAAGGGCACAAAGGAAGGCTGAGgtacagtggc ... tgcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
EST: gi|88451090|gb|CI534083.1|CI534083
EST:     CAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAG                         GTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
genomic: CAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAGgtacagtggc ... tgcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
EST: gi|86504097|gb|CI146730.1|CI146730
EST:     TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAG                         GTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
genomic: TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAGgtacagtggc ... tgcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
EST: gi|66927949|gb|CX114797.1|CX114797
EST:     TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAG                         GTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
genomic: TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAGgtacagtggc ... tgcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
EST: gi|86599345|gb|CI251303.1|CI251303
EST:     TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAG                         GTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
genomic: TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAGgtacagtggc ... tgcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
EST: gi|88376312|gb|CI533214.1|CI533214
EST:     TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAG                         GTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
genomic: TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAGgtacagtggc ... tgcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
EST: gi|88963710|gb|CI029483.1|CI029483
EST:     TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAG                         GTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
genomic: TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAGgtacagtggc ... tgcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
EST: gi|88473485|gb|CI410756.1|CI410756
EST:     TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAG                         GTACGCCGTGTCCAAGTTGTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
genomic: TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAGgtacagtggc ... tgcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
EST: gi|33674802|gb|CF303041.1|CF303041
EST:     TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAG                         GTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
genomic: TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAGgtacagtggc ... tgcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
EST: gi|88487843|gb|CI425114.1|CI425114
EST:     GGCATNAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAG                         GTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
genomic: GGCAT-AGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAGgtacagtggc ... tgcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
EST: gi|86420400|gb|CI056389.1|CI056389
EST:     TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAG                         GTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
genomic: TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAGgtacagtggc ... tgcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
EST: gi|218486310|gb|FG947933.1|FG947933
EST:     TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAG                         GTACGCCGTGTCCGAGGTCTTGTGGAGAC
genomic: TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAGgtacagtggc ... tgcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGAC
EST: gi|86835390|gb|CI347847.1|CI347847
EST:     TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAG                         GTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
genomic: TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAGgtacagtggc ... tgcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
EST: gi|22305160|gb|BQ906382.1|BQ906382
EST:     TGATGGCATAGAGGCANGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAG                         GTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
genomic: TGATGGCATAGAGGCA-GAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAGgtacagtggc ... tgcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
EST: gi|58685366|gb|CK074053.1|CK074053
EST:     TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAG                         GTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
genomic: TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAGgtacagtggc ... tgcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
EST: gi|89188214|gb|CI115463.1|CI115463
EST:     TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAG                         GTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
genomic: TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAGgtacagtggc ... tgcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
EST: gi|218494744|gb|FG957721.1|FG957721
EST:     TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAG                         GTACGCCGTGTCCAAGGTCTTGTGGACACGTTGGATAAGCTGAAGGCAAGA
genomic: TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAGgtacagtggc ... tgcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
EST: gi|88256833|gb|CI354614.1|CI354614
EST:     TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAG                         GTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
genomic: TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAGgtacagtggc ... tgcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
EST: gi|33675145|gb|CF303384.1|CF303384
EST:     TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAG                         GTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
genomic: TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAGgtacagtggc ... tgcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
EST: gi|88469156|gb|CI406427.1|CI406427
EST:     TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAG                         GTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
genomic: TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAGgtacagtggc ... tgcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
EST: gi|88516400|gb|CI444054.1|CI444054
EST:     TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAG                         GTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
genomic: TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAGgtacagtggc ... tgcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
EST: gi|86842371|gb|CI335269.1|CI335269
EST:     TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAG                         GTACGCCGTGTCCGAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
genomic: TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAGgtacagtggc ... tgcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
EST: gi|33675421|gb|CF303660.1|CF303660
EST:     TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAG                         GTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
genomic: TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAGgtacagtggc ... tgcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
EST: gi|89192518|gb|CI016527.1|CI016527
EST:     TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAG                         GTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
genomic: TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAGgtacagtggc ... tgcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
EST: gi|86433949|gb|CI094292.1|CI094292
EST:     TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAG                         GTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
genomic: TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAGgtacagtggc ... tgcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
EST: gi|33676869|gb|CF305108.1|CF305108
EST:     TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAG                         GTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA
genomic: TTGATGGCATAGAGGCAGAGGGAGAAGCAAGGGCACAAAGGAAGGCTGAGgtacagtggc ... tgcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctggaggcattgtatgctgtacataccctcacaataacgatgacttgcattgcagGTACGCCGTGTCCAAGGTCTTGTGGAGACGTTGGATAAGCTGAAGGCAAGAAATGCCAATCCCTTCAGCGATCAAAACAAATCTGTTTCAGTGACAACGC
                               caataac  putative branch site (score: 2)
        attgtat  TA-rich tract