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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtggatatttaagtcatcctattgtttcttgttttttactcctgaatgttgttcagagctgtaattaagttgatactccataaacaacagGGAATTGGTATCCTTCTTGATGGGCTATTTGGAACGGGTACTGGCTCCACCGTGTCAGT

Basic information

species Oryza sativa
transcript LOC_Os01g55500.2
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g55500.1 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G437859_T02 (Zea mays), 3'ss of exon 9
gtggatatttaagtcatcctattgtt--tcttgttttttactcctgaatgtt----gttcagagctgtaattaagttgatactcc-ataaacaacagGGAATTGGTATCCTTCTTGATGGGCTATTTGGAACGGGTACTGGCTCCACCGTGTCAGT
||| |   ||   |   || ||  ||  |||| | ||| ||        ||     ||||| | ||| ||  |||  ||| ||||    ||| ||||||||| || ||||| ||||| ||||| ||||||||||| ||||||||||| || |||||
gtgaacgctttcttgcgcccatgattgttcttctctttcacgttccgtcgtcagacgttcaaaactgaaaaaaaga-gatgctcctgcgaacgacagGGAATCGGCATCCTCCTTGACGGGCTCTTTGGAACGGGGACTGGCTCCACTGTCTCAGT
















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|58669485|gb|CK058171.1|CK058171
EST:     GTGCTACTCCACCTCCAGCACATATCCTCAGTAGAGGCATTGGGTGGCAG                         GGAATTGGTATCCTTCTTGATGGGCTATTTGGAACGGGTACTGGCTCCACC
genomic: GTGCTACTCCACCTCCAGCACATATCCTCAGTAGAGGCATTGGGTGGCAGgtggatattt ... taaacaacagGGAATTGGTATCCTTCTTGATGGGCTATTTGGAACGGGTACTGGCTCCACC
EST: gi|33793472|gb|CF322619.1|CF322619
EST:     GTGCTACTCCACCTCCAGCACATATCCTCAGTAGAGGCATTGGGTGGCAG                         GGAATTGGTATCCTTCTTGATGGGCTATTTGGAACGGGTACTGGCTCCACC
genomic: GTGCTACTCCACCTCCAGCACATATCCTCAGTAGAGGCATTGGGTGGCAGgtggatattt ... taaacaacagGGAATTGGTATCCTTCTTGATGGGCTATTTGGAACGGGTACTGGCTCCACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttactcctgaatgttgttcagagctgtaattaagttgatactccataaacaacagGGAATTGGTATCCTTCTTGATGGGCTATTTGGAACGGGTACTGGCTCCACCGTGTCAGT
                                agttgat  putative branch site (score: 5)
                          taattaagttgata  TA-rich tract