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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agtgttaagtttttatgtaccatcaaatttcgtgctaaaccctgagaatcttactggattacaaactaaatgcagcttttttttttgtgtgtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGACATCAG

Basic information

species Oryza sativa
transcript LOC_Os06g40650.3
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g40650.3 (Oryza sativa), 3'ss of exon 10
lower sequence: GRMZM2G345544_T02 (Zea mays), 3'ss of exon 10
-agtgtt--aagtttttatgtaccatcaaatttcgtgctaaaccctgaga---atcttactggattacaaactaaatgcagcttttttttttgtgtgtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGACATCAG
  ||  |  | ||||| |  | |  || | |   |   | ||   || |    | | ||     |  ||||||||  |  || |      || |   ||    ||| ||||| | ||||| ||| ||||||| ||||| ||||||||||| ||||||||||||
gggtactcgaggttttgagttcctttctactgatgaaatgaaatgtgtgctacaacatatgttctctcaaactaa--gaggcctggcccattttacctg----cagCTGTGCCCCATCTGCATGTATAAATCGAAGGACCTTGCATTTGGGTGTGGACATCAG
















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|86873475|gb|CI329853.1|CI329853
EST:     TAGAAGG-AGACTT                         TTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: TAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|88323896|gb|CI561305.1|CI561305
EST:     ACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTT                         TTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: ACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|86431194|gb|CI083617.1|CI083617
EST:     CTTTAGAAGGAAGACTT                         TTGTGCGCAATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: CTTTAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|86852907|gb|CI323216.1|CI323216
EST:     CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTT                         TTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|16578949|gb|BI813044.1|BI813044
EST:     CAACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTT                         TTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: C-ACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|86503322|gb|CI145955.1|CI145955
EST:     CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTT                         TTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|86866097|gb|CI336820.1|CI336820
EST:     CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTT                         TTTTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|58602255|gb|CK012783.1|CK012783
EST:     CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTT                         TTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|86431479|gb|CI085090.1|CI085090
EST:     CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTT                         TTGTGCGCGATCTGTACGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|29675528|gb|CB671803.1|CB671803
EST:     CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTT                         TTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|33679963|gb|CF308202.1|CF308202
EST:     CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTATAAGGAAGACTT                         TTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|88219225|gb|CI220498.1|CI220498
EST:     CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTT                         TTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|58693473|gb|CK082160.1|CK082160
EST:     CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTT                         TTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|29626654|gb|CB631665.1|CB631665
EST:     CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTT                         TTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|89192113|gb|CI393470.1|CI393470
EST:     CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTT                         TTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|58687614|gb|CK076301.1|CK076301
EST:     CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGAC-T                         TTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|88964574|gb|CI069922.1|CI069922
EST:     CCTCGGAAAGTTCTTTAGAAGGAAGACTT                         TTGTGCGCAATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: CCTCGGAAAGTTCTTTAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|32948233|gb|BP184805.1|BP184805
EST:     CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTT                         TTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|86869003|gb|CI335570.1|CI335570
EST:     AGAAGGAAGACTT                         TTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: AGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|29618637|gb|CB623649.1|CB623649
EST:     CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTT                         TTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|58687458|gb|CK076145.1|CK076145
EST:     CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTT                         TTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|55411731|gb|CV724107.1|CV724107
EST:     AAGTTCTTTAGAAGGAAGACTT                         TTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: AAGTTCTTTAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|88841683|gb|CI080939.1|CI080939
EST:     CCTCGGAAAGTTCTTTAGAAGGAAGACTT                         TTGTGCGCAATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: CCTCGGAAAGTTCTTTAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|38475052|gb|CF959185.1|CF959185
EST:     CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTT                         TTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|86901264|gb|CI326107.1|CI326107
EST:     GCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTT                         TTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: GCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|58690905|gb|CK079592.1|CK079592
EST:     CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTT                         TTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|86437818|gb|CI119738.1|CI119738
EST:     CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTT                         TTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|86869767|gb|CI322253.1|CI322253
EST:     TTCTTTAGAA-GAAGACTT                         TTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: TTCTTTAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|86854642|gb|CI258935.1|CI258935
EST:     CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTT                         TTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|86860661|gb|CI324933.1|CI324933
EST:     TAGAAGGAAGACTT                         TTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: TAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|86835086|gb|CI346566.1|CI346566
EST:     CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTT                         TTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|88250694|gb|CI348924.1|CI348924
EST:     CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTT                         TTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|87034765|gb|CI189389.1|CI189389
EST:     CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTT                         TTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|86899745|gb|CI327558.1|CI327558
EST:     CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTT                         TTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|58693073|gb|CK081760.1|CK081760
EST:     CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTT                         TTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|86837664|gb|CI345836.1|CI345836
EST:     AAGTTCTTTAGAAGGAAGACTT                         TTGTGCGCAATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: AAGTTCTTTAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|33657483|gb|CF280097.1|CF280097
EST:     CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTT                         TTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
EST: gi|16578667|gb|BI812762.1|BI812762
EST:     CTGACACTTATACCCTCGGAAAGTTCTTTAGAAGGAAGACTT                         TTGTGCGCTATCTGTATGGATAAATCACAAGGATCTTGCATTTGGATGTGG
genomic: CTGACACTTATA-CCTCGGAAAGTTCTTTAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCA-AAGGATCTTGCATTTGGATGTGG
EST: gi|58678572|gb|CK067259.1|CK067259
EST:     CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTT                         TTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA
genomic: CCACTGCACCTGACACTTATACCTCGGAAAGTTCTTTAGAAGGAAGACTTgtaagtattt ... gtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaatcttactggattacaaactaaatgcagcttttttttttgtgtgtggtttcagTTGTGCGCTATCTGTATGGATAAATCAAAGGATCTTGCATTTGGATGTGGACATCAG
                  aactaaa  putative branch site (score: 2)
            attacaaactaaat  TA-rich tract