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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCAACATTTAGAGGACAGGTCCTCAACGGCAGTCAGCTGTGGGATCTTATTGAAGGGCTGGCGGAAAACGATTTATTGCATTATACCCATTTATTAACAGgtgaatgacttcttcttcattttacactttcccatcctttgtcaaagaaaaaaaaagctctcctgtttctggtgatgttttcatcacaatggcatgcataccggttagccatctcctttgtactgccaaataaggtttgtgtgttttaacaaaaagtaacatgatgtttatggtattcag

Basic information

species Oryza sativa
transcript LOC_Os12g40830.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g40830.3 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G069758_T02 (Zea mays), 5'ss of exon 5
CCAACATTTAGAGGACAGGTCCTCAACGGCAGTCAGCTGTGGGATCTTATTGAAGGGCTGGCGGAAAACGATTTATTGCATTATACCCATTTATTAACAGgtgaatgacttcttcttcattttacactttcccatcctt--tgtcaaagaaaaaaaa-agctctcctgttt---ctggtgatgttttcatcacaatggcatgcataccggttagccatctcctttgtactgccaaataaggtttgtgtgttttaacaaaaagtaacatgatgtttatggtattcag
|||||||||||||| ||||| || || |||| ||||| ||||| ||||||||||| |||| |||||| | || | ||||||||||||||||||||||||||| || || | ||||||||| |||| | |||| ||| || | || || || |||| ||| || || || || | | | | || |
CCAACATTTAGAGGTCAGGTTCTTAATGGCAAACAGCTCTGGGACCTTATTGAAGGACTGGAGGAAAATCAGTTGCTTCATTATACCCATTTATTAACAGgtgaaa---------------ctagacgtgcccatccttcatgtccaggaaataaactagattaattgcttggtcttatgatattt-caccatgataccaaggaaa--aatcagtgac--------------------------------------------------------------------
















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|58661072|gb|CK049752.1|CK049752
EST:     TGAAGGGCTGGTGGAAAACGATTTATTGCATTATACCCATTTATTAACAG                         GTTATATTGGATCTGTTTCCTTTTTAACTACTGTACTACAAGTTGTTGACA
genomic: TGAAGGGCTGGCGGAAAACGATTTATTGCATTATACCCATTTATTAACAGgtgaatgact ... tggtattcagGTTATATTGGATCTGTTTCCTTTTTAACTACTGTACTACAAGTTGTTGACA
EST: gi|88448481|gb|CI693864.1|CI693864
EST:     TGAAGGGCTGGCGGAAAACGATTTATTGCATTATACCCATTTATTAACAG                         GTTATATTGGATCTGTTTCCTTTTTAACTACTGTACTACAAGTTGTTGACA
genomic: TGAAGGGCTGGCGGAAAACGATTTATTGCATTATACCCATTTATTAACAGgtgaatgact ... tggtattcagGTTATATTGGATCTGTTTCCTTTTTAACTACTGTACTACAAGTTGTTGACA
EST: gi|88301040|gb|CI592220.1|CI592220
EST:     TGAAGGGCTGGCGGAAAACGATTTATTGCATTATACCCATTTATTAACAG                         GTTATATTGGATCTGTTTCCTTTTTAAC
genomic: TGAAGGGCTGGCGGAAAACGATTTATTGCATTATACCCATTTATTAACAGgtgaatgact ... tggtattcagGTTATATTGGATCTGTTTCCTTTTTAAC
EST: gi|88443713|gb|CI591938.1|CI591938
EST:     TGAAGGGCTGGCGGAAAACGATTTATTGCATTATACCCATTTATTAACAG                         GTTATATTGGATCTGTTTCCTTTTTAACTACTGTACTACAAGTTGTTGACA
genomic: TGAAGGGCTGGCGGAAAACGATTTATTGCATTATACCCATTTATTAACAGgtgaatgact ... tggtattcagGTTATATTGGATCTGTTTCCTTTTTAACTACTGTACTACAAGTTGTTGACA
EST: gi|88580749|gb|CI697698.1|CI697698
EST:     TGAAGGGCTGGCGGAAAACGATTTATTGCATTATACCCATTTATTAACAG                         GTTATATTGGATCTGTTTCCTTTTTAACTAC
genomic: TGAAGGGCTGGCGGAAAACGATTTATTGCATTATACCCATTTATTAACAGgtgaatgact ... tggtattcagGTTATATTGGATCTGTTTCCTTTTTAACTAC
EST: gi|88335844|gb|CI645445.1|CI645445
EST:     TGAAGGGCTGGCGGAAAACGATTTATTGCATTATACCCATTTATTAACAG                         GTTATATTGGATCTGTTTCCTTTTCAACT
genomic: TGAAGGGCTGGCGGAAAACGATTTATTGCATTATACCCATTTATTAACAGgtgaatgact ... tggtattcagGTTATATTGGATCTGTTTCCTTTTTAACT
EST: gi|66924011|gb|CX110859.1|CX110859
EST:     TGAAGGGCTGGCGGAAAACGATTTATTGCATTATACCCATTTATTAACAG                         GTTATATTGGATCTGTTTCCTTTTTAACTACTGTACTACAAGTTGTTGACA
genomic: TGAAGGGCTGGCGGAAAACGATTTATTGCATTATACCCATTTATTAACAGgtgaatgact ... tggtattcagGTTATATTGGATCTGTTTCCTTTTTAACTACTGTACTACAAGTTGTTGACA