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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgcttctaaagtttttattcacaaattatatctcgtttgtaaatatgccatggcttccataatattgatcgtgcgtgcatggaatcatggatggatgcagGCTTCCGGGAGACTTCGGGTTCGACCCGCTGGGGCTATCGGACCCGGAGGGGACCGGTGGGTTCATCGAGCCACGGTGGCTGGCCTACGGCGAGGTGTTC

Basic information

species Oryza sativa
transcript LOC_Os02g10390.3
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g10390.3 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G010884_T01 (Zea mays), 3'ss of exon 2
---tgcttctaaagtttttattcac-----aaattatatctcgtttgtaaat-atgccatggcttccataat-attgatcgtgcgtgcatggaatcatggatggatgcagGCTTCCGGGAGACTTCGGGTTCGACCCGCTGGGGCTATCGGACCCGGAGGGGACCGGTGGGTTCATCGAGCCACGGTGGCTGGCCTACGGCGAGGTGTTC
    |   ||    |  ||   | |            |   | | ||  |   | |  |      | ||  | |     |           |   |||| ||| ||||||||| || || ||||  || |||||||||||||| || |||||||||||||| ||||| || |||||||||||   |||||||||||| ||||||||| ||
gtacgtacctgcgctcgttgcccgccccgcgcgcagcaaaccttctgctagcgacgatagaaaccctatgctcacctgcctcattgttgctgctgcatgcatgcatgcagGCTGCCCGGCGACTATGGCTTCGACCCGCTGGGCCTCTCGGACCCGGAGGGCACCGGGGGCTTCATCGAGCCCAAGTGGCTGGCCTATGGCGAGGTGATC
















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|33661540|gb|CF292507.1|CF292507
EST:     AGGCAGCTGTGGTTCGCATCCAAGCAGTCCCTGAGCTACCTGGATGGCAC                         GCTTCCGGGAGACTTCGGGTTCGACCCGCTGGGGCTATCGGACCCGGAGGG
genomic: AGGCAGCTGTGGTTCGCATCCAAGCAGTCCCTGAGCTACCTGGATGGCACgtaagttttc ... atggatgcagGCTTCCGGGAGACTTCGGGTTCGACCCGCTGGGGCTATCGGACCCGGAGGG
EST: gi|11442869|gb|BF430768.1|BF430768
EST:     AGGCAGCTGTGGTTCGCATCCAAGCAGTCCCTGAGCTACCTGGATGGCAC                         GCTTCCGGGAGACTTCGGGTTCGACCCGCTGGGGCTATCGGACCCGGAGGG
genomic: AGGCAGCTGTGGTTCGCATCCAAGCAGTCCCTGAGCTACCTGGATGGCACgtaagttttc ... atggatgcagGCTTCCGGGAGACTTCGGGTTCGACCCGCTGGGGCTATCGGACCCGGAGGG
EST: gi|38474972|gb|CF959105.1|CF959105
EST:     AGGCAGCTGTGGTTCGCATCCAAGCAGTCCCTGAGCTACCTGGATGGCAC                         GCTTCCGGGAGACTTCGGGTTCGACCCGCTGGGGCTATCGGACCCGGAGGG
genomic: AGGCAGCTGTGGTTCGCATCCAAGCAGTCCCTGAGCTACCTGGATGGCACgtaagttttc ... atggatgcagGCTTCCGGGAGACTTCGGGTTCGACCCGCTGGGGCTATCGGACCCGGAGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgccatggcttccataatattgatcgtgcgtgcatggaatcatggatggatgcagGCTTCCGGGAGACTTCGGGTTCGACCCGCTGGGGCTATCGGACCCGGAGGGGACCGGTGGGTTCATCGAGCCACGGTGGCTGGCCTACGGCGAGGTGTTC
                 tattgat  putative branch site (score: 3)
             ataatattgat  TA-rich tract