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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGAGCTTGGCCTCGCGCCGCGGAACCCCGGGTCCTTCGCCTGCGGCGCCTGGGGCGGCTCGGGCCCCGTCGTCACGTCCACCAACCCGACGAACAACCAGgcgcgtctccccccacacgatccgctcggttctaggcgctcgatttggtttgggccgccctggcatttttggggtgtgtgtgattgtggtggattttgatgggggatttttttttgggtgttttgtggtttag

Basic information

species Oryza sativa
transcript LOC_Os09g26880.4
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os09g26880.4 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G130440_T01 (Zea mays), 5'ss of exon 1
CGAGCTTGGCCTCGCGCCGCGGAACCCCGGGTCCTTCGCCTGCGGCGCCTGGGGCGGCTCGGGCCCCGTCGTCACGTCCACCAACCCGACGAACAACCAGgcgcgtctcccccca-cacgatccgctcggttctaggcgctcgatttggtttgggccgccctggcatttttggggtgtgtgtgattgtg-gtggattttgatgggggatttttttttgggtgttttgtggtttag
|||||| |||||||||| ||| ||||| ||  | ||||| ||||| || ||||||||||| || |||  |||||| ||||| | |||||| ||||| |||| ||||| |  | |  | ||||| ||||||||   | |||||    || |     |||   | |  | | ||| | || | |||| | | ||   ||||  | |||    |   | |  ||||| |         
CGAGCTCGGCCTCGCGCAGCGCAACCCAGGCGCGTTCGCATGCGGTGCGTGGGGCGGCTCAGGTCCCACCGTCACCTCCACGAGCCCGACCAACAATCAGgtgcgtccctgcacggcccgatctgctcggtttc-gccgctccgcctgtt-----ccgtgtttgtttgtgtggtgggtttttgatcgagtgtttgtttttgttgggtgcgtggctatctgtgttctag-------
















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|58612459|gb|CK040171.1|CK040171
EST:     CCGACGAACAACCAG                         GTCATCGCGGAGGTCGTGGAGGCGT-CGCGCGTGAGTACGAGGAGGGCATG
genomic: CCGACGAACAACCAGgcgcgtctcc ... tgtggtttagGTCATCGCGGAGGTCGTGGAGGCGTCCGCGCGTGAGTACGAGGAGGGCATG
EST: gi|88730430|gb|CI754043.1|CI754043
EST:     GGGGCGGCTCGGGCCCCGTCGTCACGTCCACCAACCCGACGAACAACCAG                         GTCATCGCGGAGGTCGTGGAGGCGTCCGCGCGTGAGTACGAGGAGGGCATG
genomic: GGGGCGGCTCGGGCCCCGTCGTCACGTCCACCAACCCGACGAACAACCAGgcgcgtctcc ... tgtggtttagGTCATCGCGGAGGTCGTGGAGGCGTCCGCGCGTGAGTACGAGGAGGGCATG