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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgtgtgacaggaagttttgtatactgaaatgtttgttttggtttggtggtaagagtgaaatttgttggatgtgcagGAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGATCTGAAAGCGTACCTGGCCAATGCGTACCTGCACCCGGTGTTCAAAGGCA

Basic information

species Oryza sativa
transcript LOC_Os05g51630.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g51630.2 (Oryza sativa), 3'ss of exon 10
lower sequence: GRMZM2G456000_T01 (Zea mays), 3'ss of exon 11
--gtaatgtgtgacaggaagttttgt-atactgaaatgtttgttttggtttggtggtaagagtgaa---atttgttggatgt--gcagGAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGATCTGAAAGCGTACCTGGCCAATGCGTACCTGCACCCGGTGTTCAAAGGCA
   || |  |     | |  |  |   | | ||  ||    | |  | |||| ||   |   |  |   |  | |   |||   |||||| ||||||| ||| |||||||| ||||| ||  ||||||| | ||| |||||||| ||||||||||||||  |||||||||||||||||||||| ||  
gtatatttcgccgtggcatatgctaccacattgtcattgacgatg-gatttgctgaacatgatatatatacatatgaaatggtggcagGAGGCGATGAAGAAGGACACCCTAGAACGCGCCCGGGAGCCCAACTTGGATCTGAAGGCGTACCTGGCCAACTCGTACCTGCACCCGGTGTTCAAGGGGG
















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|29666920|gb|CB663195.1|CB663195
EST:     AGTACTGCAAGAACCGGTTTGAGCCTGCATTTGTGAGGAACCCACTACAG                         GAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGAT
genomic: AGTACTGCAAGAACCGGTTTGAGCCTGCATTTGTGAGGAACCCACTACAGgtaatgtgtg ... ggatgtgcagGAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGAT
EST: gi|86538186|gb|CI178392.1|CI178392
EST:     AGAACCGGTTTGAGCCTGCATTTGTGAGGAACCCACTACAG                         GAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGAT
genomic: AGAACCGGTTTGAGCCTGCATTTGTGAGGAACCCACTACAGgtaatgtgtg ... ggatgtgcagGAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGAT
EST: gi|29660844|gb|CB657119.1|CB657119
EST:     AGTACTGCAAGAACCGGTTTGAGCCTGCATTTGTGAGGAACCCACTACAG                         GAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGAT
genomic: AGTACTGCAAGAACCGGTTTGAGCCTGCATTTGTGAGGAACCCACTACAGgtaatgtgtg ... ggatgtgcagGAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGAT
EST: gi|218481681|gb|FG962994.1|FG962994
EST:     AGTACTGCAAGAACCGGTTTGAGCCTGCCTTTGTGAGGAACCCACTACAG                         GAAGCGATGAGGAAAGACATCCTGGAACGGGCAAGGGAGCCAACCTTCGAT
genomic: AGTACTGCAAGAACCGGTTTGAGCCTGCATTTGTGAGGAACCCACTACAGgtaatgtgtg ... ggatgtgcagGAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGAT
EST: gi|86835886|gb|CI346081.1|CI346081
EST:     AGTACTGCAAGAACCGGTTTGAGCCTGCATTTGTGAGGAACCCACTACAG                         GAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGAT
genomic: AGTACTGCAAGAACCGGTTTGAGCCTGCATTTGTGAGGAACCCACTACAGgtaatgtgtg ... ggatgtgcagGAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGAT
EST: gi|88474517|gb|CI411788.1|CI411788
EST:     TGCATTTGTGAGGAACCCACTACAG                         GAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGAT
genomic: TGCATTTGTGAGGAACCCACTACAGgtaatgtgtg ... ggatgtgcagGAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGAT
EST: gi|29666876|gb|CB663151.1|CB663151
EST:     AGTACTGCAAGAACCGGTTTGAGCCTGCATTTGTGAGGAACCCACTACAG                         GAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGAT
genomic: AGTACTGCAAGAACCGGTTTGAGCCTGCATTTGTGAGGAACCCACTACAGgtaatgtgtg ... ggatgtgcagGAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGAT
EST: gi|88529999|gb|CI458362.1|CI458362
EST:     TTGTGAGGAACCCACTACAG                         GAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGAT
genomic: TTGTGAGGAACCCACTACAGgtaatgtgtg ... ggatgtgcagGAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGAT
EST: gi|88502300|gb|CI429806.1|CI429806
EST:     AGCCTGCATTTGTGAGGAACCCACTACAG                         GAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGAT
genomic: AGCCTGCATTTGTGAGGAACCCACTACAGgtaatgtgtg ... ggatgtgcagGAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGAT
EST: gi|29678913|gb|CB675188.1|CB675188
EST:     AGTACTGCAAGAACCGGTTTGAGCCTGCATTTGTGAGGAACCCACTACAG                         GAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGAT
genomic: AGTACTGCAAGAACCGGTTTGAGCCTGCATTTGTGAGGAACCCACTACAGgtaatgtgtg ... ggatgtgcagGAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGAT
EST: gi|88501925|gb|CI429431.1|CI429431
EST:     TGAGGAACCCACTACAG                         GAAGCGATGAGGAAAGACACCCTGGAACGGGGCAAGGGAGCCAACCTTCGA
genomic: TGAGGAACCCACTACAGgtaatgtgtg ... ggatgtgcagGAAGCGATGAGGAAAGACACCCTGGAAC-GGGCAAGGGAGCCAACCTTCGA
EST: gi|29627769|gb|CB632780.1|CB632780
EST:     AGTACTGCAAGAACCGGTTTGAGCCTGCATTTGTGAGGAACCCACTACAG                         GAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGAT
genomic: AGTACTGCAAGAACCGGTTTGAGCCTGCATTTGTGAGGAACCCACTACAGgtaatgtgtg ... ggatgtgcagGAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGAT
EST: gi|88487157|gb|CI424428.1|CI424428
EST:     GCCTGCATTTGTGAGGAACCCACTACAG                         GAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGAT
genomic: GCCTGCATTTGTGAGGAACCCACTACAGgtaatgtgtg ... ggatgtgcagGAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGAT
EST: gi|88480824|gb|CI418095.1|CI418095
EST:     TTTGTGAGGAACCCACTACAG                         GAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGAT
genomic: TTTGTGAGGAACCCACTACAGgtaatgtgtg ... ggatgtgcagGAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGAT
EST: gi|5607372|gb|AU076044.1|AU076044
EST:     GTACTGCAAGAACCGGTTTGAG-CTGCATTTGTGAGGAACCCANTTACAG                         GAANCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGA
genomic: GTACTGCAAGAACCGGTTTGAGCCTGCATTTGTGAGGAACCCA-CTACAGgtaatgtgtg ... ggatgtgcagGAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGA
EST: gi|88511172|gb|CI438678.1|CI438678
EST:     ACCCACTACAG                         GAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGAT
genomic: ACCCACTACAGgtaatgtgtg ... ggatgtgcagGAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGAT
EST: gi|88524719|gb|CI453663.1|CI453663
EST:     TGAGGAACCCACTACAG                         GAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGAT
genomic: TGAGGAACCCACTACAGgtaatgtgtg ... ggatgtgcagGAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGAT
EST: gi|88482848|gb|CI420119.1|CI420119
EST:     ACCCACTACAG                         GAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGAT
genomic: ACCCACTACAGgtaatgtgtg ... ggatgtgcagGAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGAT
EST: gi|88837473|gb|CI078833.1|CI078833
EST:     AGTACTGCAAGAACCGGTTTGAGCCTGCATTTGTGAGGAACCCACTACAG                         GAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGAT
genomic: AGTACTGCAAGAACCGGTTTGAGCCTGCATTTGTGAGGAACCCACTACAGgtaatgtgtg ... ggatgtgcagGAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGAT
EST: gi|89185677|gb|CI047546.1|CI047546
EST:     AGTACTGCAAGAACCGGTTTGAGCCTGCATTTGTGAGGAACCCACTACAG                         GAAGCGATGAGGAAAGACACCNTGGAACGGGCAAGGGAGCCAACCTTCGAT
genomic: AGTACTGCAAGAACCGGTTTGAGCCTGCATTTGTGAGGAACCCACTACAGgtaatgtgtg ... ggatgtgcagGAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tactgaaatgtttgttttggtttggtggtaagagtgaaatttgttggatgtgcagGAAGCGATGAGGAAAGACACCCTGGAACGGGCAAGGGAGCCAACCTTCGATCTGAAAGCGTACCTGGCCAATGCGTACCTGCACCCGGTGTTCAAAGGCA
                                    aaatttgtt  TA-rich tract