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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtactttggaacttgcttgtgttatcaattttgcatgttctgaaaactgggttgtaattgtgtgctgtatcgctgtcaaaccttttctttagGGAATGCCCAGCAGACTTGAAAGAAGGTATCTGCAGTTTGATTTTTGCCGCCCCAAGGTGCTCAGAACTCCCTGAACTCGGTCGGATCCGCGATCTTTTT

Basic information

species Oryza sativa
transcript LOC_Os09g37510.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os09g37510.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G012413_T01 (Zea mays), 3'ss of exon 3
gtttgtactttggaacttgcttgtgttatcaattttgcatgttctgaaaactgggttgtaattgtgtgctgtatcgctgtcaaaccttttctttagGGAATGCCCAGCAGACTTGAAAGAAGGTATCTGCAGTTTGATTTTTGCCGCCCCAAGGTGCTCAGAACTCCCTGAACTCGGTCGGATCCGCGATCTTTTT
||||||  ||    ||    |    ||   ||  ||   |||||| | || |  |  | || |  |  |   |||     | ||| |||| || |||||||| ||||||||||||||||||||||||||||||||||| ||||| || ||||||||||| || ||||||||||| ||||| || || ||  |||||
gtttgtctttaactacca--tcaccttcctaaacttatttgttctcataagtatg--gaaaataaggtcctaatcttgtgccaactttttattcagGGAATGTCCAGCAGACTTGAAAGAAGGTATCTGCAGTTTGATATTTGCAGCTCCAAGGTGCTCTGAGCTCCCTGAACTTGGTCGCATACGTGACATTTTT

upper sequence: LOC_Os09g37510.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA02G04900.1 (Glycine max), 3'ss of exon 3
gtttgtactttggaacttgcttgtgttatcaattttgcatgttctgaa-aactgggttgtaattgtgtgctgtatcgctgtcaaaccttttctttagGGAATGCCCAGCAGACTTGAAAGAAGGTATCTGCAGTTTGATTTTTGCCGCCCCAAGGTGCTCAGAACTCCCTGAACTCGGTCGGATCCGCGATCTTTTT
           | ||  || ||  |   ||| | |   ||  |   |   || || ||| |||| ||     ||    |   |     ||  || |||||||| |||||||| ||||||||||| ||    || ||||| ||||| ||||| |||||||| ||| |||| ||||| |      |     || | |||
-----------gtaaagtgtttcggaactcattatcttattataaaagtgacaggcttgaaattctg----atactaatccta----cttgtttcagGGAATGTCCAGCAGATTTGAAAGAAGGAATTGCTAGCTTGATATTTGCAGCCCCTAGGTGCTCTGAAATCCCAGAACTTGTGGCACTTAAGAATATCTTT
















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|86903390|gb|CI310550.1|CI310550
EST:     CTTTTCTGTGAGCTGATTGTTACACGCCTTCCCATCATTGCAAAGCAGAA                         GGAATGCCCAGCAGACTTGA
genomic: CTTTTCTGTGAGCTGATTGTTACACGCCTTCCCATCATTGCAAAGCAGAAgtttgtactt ... ttttctttagGGAATGCCCAGCAGACTTGA
EST: gi|58679451|gb|CK068138.1|CK068138
EST:     CTTTTCTGTGAGCTGATTGTTACACGCCTTCCCATCATTGCAAAGCAGAA                         GGAATGCCCAGCAGACTTGAAAGAAGGTATCTGCAGTTTGATTTTTGCCGG
genomic: CTTTTCTGTGAGCTGATTGTTACACGCCTTCCCATCATTGCAAAGCAGAAgtttgtactt ... ttttctttagGGAATGCCCAGCAGACTTGAAAGAAGGTATCTGCAGTTTGATTTTTGCCGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctgaaaactgggttgtaattgtgtgctgtatcgctgtcaaaccttttctttagGGAATGCCCAGCAGACTTGAAAGAAGGTATCTGCAGTTTGATTTTTGCCGCCCCAAGGTGCTCAGAACTCCCTGAACTCGGTCGGATCCGCGATCTTTTT
                                           ccttttcttt  CT-rich tract
                                             ttttcttta  TA-rich tract