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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgtgagagccgaagcggcggcggctgcattgcattttttcctgctcgggatttcgcattctgaatccacgtcttggatttttgctgtttcagGGGAGGCGATCATACTGGGATTCCAGCACTACATCCTGGCGCTGGGCACGGCGGTGATGATCCCGGCGGTGCTGGTGCCCATGATGGGCGGGAGCGAC

Basic information

species Oryza sativa
transcript LOC_Os01g55500.4
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g55500.4 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G437859_T03 (Zea mays), 3'ss of exon 1
gtgcgtgagagccgaagcggcggcggctgcattgcattttttcctgc-tcgggatttcgcattctgaatccac-----gtcttgga-----tttttgct----gtttcagGGGAGGCGATCATACTGGGATTCCAGCACTACATCCTGGCGCTGGGCACGGCGGTGATGATCCCGGCGGTGCTGGTGCCCATGATGGGCGGGAGCGAC
    ||| |  || ||||    |  |||| |  |  ||     | || | || |||  |   ||||||||        || || |      ||||||||     ||||||| ||||||||||||||||| |||||||||||||| |||||||||||||||||||||||||||||| | ||| |||| ||||||||||||||   ||| 
----gtgcgtacccaagc--ttggagctgaaacgagttcacatccgcgttggaattcggttctctgaatctgttttgtgttttcgtctttttttttgcttttcatttcagGCGAGGCGATCATACTGGGCTTCCAGCACTACATACTGGCGCTGGGCACGGCGGTGATGATCCCGACAGTGTTGGTTCCCATGATGGGCGGCGACGAT
















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|88338897|gb|CI677311.1|CI677311
EST:     GGAGCAGCTGCAGGGGTTCGAGTACTGCATCGACTCCAACCCTCCCTGGG                         GGGAGGCGATCATACTGGGATTCCAGCACTACATCCTGGCGCTGGGCACGG
genomic: GGAGCAGCTGCAGGGGTTCGAGTACTGCATCGACTCCAACCCTCCCTGGGgtgcgtgaga ... gctgtttcagGGGAGGCGATCATACTGGGATTCCAGCACTACATCCTGGCGCTGGGCACGG
EST: gi|88692881|gb|CI736456.1|CI736456
EST:     GGAGCAGCTGCAGGGGTTCGAGTACTGCATCGACTCCAACCCTCCCTGGG                         GGGAGGCGATCATACTGGGATTCCAGCACTACATCCTGGCGCTGGGCACGG
genomic: GGAGCAGCTGCAGGGGTTCGAGTACTGCATCGACTCCAACCCTCCCTGGGgtgcgtgaga ... gctgtttcagGGGAGGCGATCATACTGGGATTCCAGCACTACATCCTGGCGCTGGGCACGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcctgctcgggatttcgcattctgaatccacgtcttggatttttgctgtttcagGGGAGGCGATCATACTGGGATTCCAGCACTACATCCTGGCGCTGGGCACGGCGGTGATGATCCCGGCGGTGCTGGTGCCCATGATGGGCGGGAGCGAC
                                        tttttgct  CT-rich tract
                                       attttt  TA-rich tract