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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgttttgcttgaacctgtgaattcttcttcgtgcagctgccccatcttttaacttactggggcaatatttcttctccagCAAACAAGGGGACCAATTCAACAGCATTCCAGAAATCACAAGAGTCAAGTGACTGCCACG

Basic information

species Oryza sativa
transcript LOC_Os03g16700.3
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g16700.4 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G063151_T01 (Zea mays), 3'ss of exon 3
gtttgttttgcttgaacctgtgaattcttcttcgtgcagctgccccatcttttaactta-ctggg-gcaatatttcttctccagCAAACAAGGGGACCAATTCAACAGCATTCCAGAAATCACAAGAGTCAAGTGACTGCCACG
||| ||||| ||   ||  |  | ||  | ||| ||    | |||  | || | ||||| ||| | | |||  ||||||| |||||||||||||||| |||||||   |||||||||||||    | ||||| ||| ||||| |
gttcgttttactgccactaggaatttgctattcatgttatt-ccctgttttgttacttatctgcgtgtaatgattcttctgcagCAAACAAGGGGACTAATTCAATGCCATTCCAGAAATCTTGTGGGTCAAATGATTGCCATG
















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|88448616|gb|CI694007.1|CI694007
EST:     GGCAAACACAAAGTTTGCTGCAAGAGACTCGCACGCGGTTTCTTTGGAAG                         CAAACAAGGGGACCAATTCAACAGCATTCCAGAAATCACAAGAGTCAAGTG
genomic: GGCAAACACAAAGTTTGCTGCAAGAGACTCGCACGCGGTTTCTTTGGAAGgtttgttttg ... tcttctccagCAAACAAGGGGACCAATTCAACAGCATTCCAGAAATCACAAGAGTCAAGTG
EST: gi|218487578|gb|FG960601.1|FG960601
EST:     GCAAACCACAAAGTTTGCTGCACGAGACTCGCACGCGGTTTCTTTGGAAG                         CAAACAAGGGGACCAATTCAACAGCATGCCAGAAATCACAAGAGTCAAGTG
genomic: GCAAA-CACAAAGTTTGCTGCAAGAGACTCGCACGCGGTTTCTTTGGAAGgtttgttttg ... tcttctccagCAAACAAGGGGACCAATTCAACAGCATTCCAGAAATCACAAGAGTCAAGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcttcgtgcagctgccccatcttttaacttactggggcaatatttcttctccagCAAACAAGGGGACCAATTCAACAGCATTCCAGAAATCACAAGAGTCAAGTGACTGCCACG
                          aacttac  putative branch site (score: 2)
                                         tatttcttctcc  putative PPT
                      ttttaactta  TA-rich tract