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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaatgtgtggtctttagagatttgttttgaagcacaatgcccccagcttccctaaccatgaaattttattattagGTCAATGCCCGTTTGGCGGCTGCAGAAGAAGCTATCGCATTATCGATATGGACTACAGCTACAATTTGTCGTGCTTTGTCTCTCGAAAGT

Basic information

species Oryza sativa
transcript LOC_Os03g05200.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g05200.2 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G107651_T01 (Zea mays), 3'ss of exon 6
gtgaatgtgtggtctttagagatt-tgttttgaagcacaatgcccccagcttccctaaccatgaaattttattattagGTCAATGCCCGTTTGGCGGCTGCAGAAGAAGCTATCGCATTATCGATATGGACTACAGCTACAATTTGTCGTGCTTTGTCTCTCGAAAGT
||  |||  ||  || |   || | |    |  || |  ||  | ||| ||||||||| | ||||| || | | | || |||||   | ||||| |||||||||||||||| | ||||| |||||||||||||  |||||| |||||||| || ||||| | ||||||
gtatatgcttgacctatcatgactctagcctatagtatcatttctcca-cttccctaatcttgaaacttgaatgt-agATCAATTTACATTTGGTGGCTGCAGAAGAAGCTCTTGCATTGTCGATATGGACTATGGCTACAGTTTGTCGTTCTCTGTCTTTGGAAAGT
















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|66924087|gb|CX110935.1|CX110935
EST:     TAGGAGACACAATTTCAGACAATGGTTTGACTTCAGTAGAAAAAACTGAC                         GTCAATGCCCGTTTGGCGGCTGCAGAAGAAGCTATCGCATTATCGATATGG
genomic: TAGGAGACACAATTTCAGACAATGGTTTGACTTCAGTAGAAAAAACTGAGgtgaatgtgt ... ttattattagGTCAATGCCCGTTTGGCGGCTGCAGAAGAAGCTATCGCATTATCGATATGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgttttgaagcacaatgcccccagcttccctaaccatgaaattttattattagGTCAATGCCCGTTTGGCGGCTGCAGAAGAAGCTATCGCATTATCGATATGGACTACAGCTACAATTTGTCGTGCTTTGTCTCTCGAAAGT
                             ccctaac  putative branch site (score: 2)
                                           ttttatt  putative PPT
                                taaccatgaaatttta  TA-rich tract