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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggacacattccctttgatgatcacaattcagcccatgtccataaccattgttcatcttcaccggggcgagaaacataatgtgtgttccattgtccaaccagGTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATACGCATGCCGATCTGACCGCTTACAGCAGCAACAAGGCCTAGAAGGCCAAG

Basic information

species Oryza sativa
transcript LOC_Os01g09300.3
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g09300.2 (Oryza sativa), 3'ss of exon 10
lower sequence: GRMZM2G147882_T01 (Zea mays), 3'ss of exon 9
-------------------------------------gtaaggacacattccctttgatgatcacaattcagcccatgtccataaccattgttcatcttca----ccggggcg--agaaacataatgtgtgttccattgtccaaccagGTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATACGCATGCCGATCTGACCGCTTACAGCAGCAACAAGGCCTAGAAGGCCAAG
                                     |  ||| || || |           ||    ||||   |  |  |||     |||||    |||    |||   |   | |       ||| | |  | |   |   ||||||||||||||||||| ||||| || ||||| || ||||| |||||||| || || || |||||||   | |||  |  || ||||||||     |   | 
gtaagctctatcaggcatcctcgatcggatggctggagccagg-cagatgctagccatctgccattcatcaggatacatatatatattatgttctctgtcaaattccgaatctttacagctgcgttgtatatatc-tccactgcccagGTTCCCTCCGATCACCTGCTCCGCGTACCTGTCCCAGCGCTACAAGGACACTCACGCGGATCTGAAATCCTACGACGACAGCAAGGCCTGATCAGAGGAC
















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|86825508|gb|CI361702.1|CI361702
EST:     TAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
genomic: TAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAAgtaaggacac ... gtccaaccagGTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
EST: gi|88838223|gb|CI373583.1|CI373583
EST:     TCTGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
genomic: TCTGAATCAAATCCTCCAAAgtaaggacac ... gtccaaccagGTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
EST: gi|29638841|gb|CB643850.1|CB643850
EST:     TGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
genomic: TGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAAgtaaggacac ... gtccaaccagGTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
EST: gi|22307986|gb|BQ909208.1|BQ909208
EST:     TGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
genomic: TGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAAgtaaggacac ... gtccaaccagGTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
EST: gi|29662625|gb|CB658900.1|CB658900
EST:     TGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
genomic: TGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAAgtaaggacac ... gtccaaccagGTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
EST: gi|33690519|gb|CF318758.1|CF318758
EST:     TGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAA                         GTTCCCTCCGATCGCTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
genomic: TGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAAgtaaggacac ... gtccaaccagGTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
EST: gi|25803965|gb|CA759926.1|CA759926
EST:     TGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
genomic: TGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAAgtaaggacac ... gtccaaccagGTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
EST: gi|33690409|gb|CF318648.1|CF318648
EST:     TGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
genomic: TGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAAgtaaggacac ... gtccaaccagGTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
EST: gi|29615163|gb|CB620176.1|CB620176
EST:     TGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
genomic: TGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAAgtaaggacac ... gtccaaccagGTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
EST: gi|33655635|gb|CF278249.1|CF278249
EST:     TGCGTAGTCGAGTGCCTGCCAACCTGCAAATTTGAATCAAATCCTCCAAA                         GTTCCCTCCGATCGCTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
genomic: TGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAAgtaaggacac ... gtccaaccagGTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
EST: gi|29678794|gb|CB675069.1|CB675069
EST:     TGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
genomic: TGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAAgtaaggacac ... gtccaaccagGTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
EST: gi|29615162|gb|CB620175.1|CB620175
EST:     TGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
genomic: TGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAAgtaaggacac ... gtccaaccagGTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
EST: gi|33658108|gb|CF280722.1|CF280722
EST:     TGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
genomic: TGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAAgtaaggacac ... gtccaaccagGTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
EST: gi|38473536|gb|CF957668.1|CF957668
EST:     TGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
genomic: TGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAAgtaaggacac ... gtccaaccagGTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
EST: gi|33683276|gb|CF311515.1|CF311515
EST:     TGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACTTGCTCGGCATGCCTATCGCAGCGGTACAAGGATAC
genomic: TGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAAgtaaggacac ... gtccaaccagGTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
EST: gi|27546279|gb|CA767193.2|CA767193
EST:     TGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
genomic: TGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAAgtaaggacac ... gtccaaccagGTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
EST: gi|29665424|gb|CB661699.1|CB661699
EST:     TGCGTAGTCGAGTGCCTGCCAACCTGCAAATATGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
genomic: TGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAAgtaaggacac ... gtccaaccagGTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
EST: gi|29655813|gb|CB652088.1|CB652088
EST:     TGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
genomic: TGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAAgtaaggacac ... gtccaaccagGTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
EST: gi|33677763|gb|CF306002.1|CF306002
EST:     TGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
genomic: TGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAAgtaaggacac ... gtccaaccagGTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
EST: gi|88444559|gb|CI557860.1|CI557860
EST:     TGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
genomic: TGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAAgtaaggacac ... gtccaaccagGTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
EST: gi|38471976|gb|CF956107.1|CF956107
EST:     TGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAA                         GTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC
genomic: TGCGTAGTCGAGTGCCTGCCAACCTGCAAATCTGAATCAAATCCTCCAAAgtaaggacac ... gtccaaccagGTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgttcatcttcaccggggcgagaaacataatgtgtgttccattgtccaaccagGTTCCCTCCGATCACTTGCTCGGCATACCTATCGCAGCGGTACAAGGATACGCATGCCGATCTGACCGCTTACAGCAGCAACAAGGCCTAGAAGGCCAAG
                        aaacataat  TA-rich tract