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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcttcactactaccatatatagaactcgatgccctttataggtcatcaatattggtttcaagtcttgtggagcaaattatgtttgattgtggttaatatactccatttctgcagTCCTTTTATCTACCATGGGCAATGCTTGGGTTGGATGTGATATTTGGCTCAGAGATACTCCCTGGCCTTCTGGGAATTCTCGTTGGACACACGTACTACT

Basic information

species Oryza sativa
transcript LOC_Os05g09550.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g09550.3 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G117388_T01 (Zea mays), 3'ss of exon 5
gtaagcttcactactaccatatatagaactcgatgccctttataggtcatcaatattggtttca--agtcttgtggagcaaattatgtttgattgtggttaatatactccatttctgcagTCCTTTTATCTACCATGGGCAATGCTTGGGTTGGATGTGATATTTGGCTCAGAGATACTCCCTGGCCTTCTGGGAATTCTCGTTGGACACACGTACTACT
              |    || |    |  |   |  || |  |   || | ||  | | |  |  || | |||| |     ||||| ||  |||| | |  ||  |||   || |||||||||||||||| |||||||| |||||    ||||||||||||||||| |||    || | ||||| |||||||| ||  | ||||||||    |||||||
-------------ttgaagtaaaggagatccatggatctctcca---cacccatcctaggtgaagcagacctgtgaact---ttatgattagttgttgatg-tactctcttcttttgcagTCCTTTTATCTTCCATGGGCTATGCTCTTATTGGATGTGATATTTGGGTCATCATTAATGCCTGGACTTCTGGGTATCATGGTTGGACATCTCTACTACT
















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|218492921|gb|FG948483.1|FG948483
EST:     GAGAATATCCGAATTCTCAGATCAGCATGTATGGCCTTGTCCAACTGAGG                         TCCTTTTATCTACCATGGGCAATGCTTGGGTTGGATGTGATATTTGGCTCA
genomic: GAGAATATCCGAATTCTCAGATCAGCATGTATGGCCTTGTCCAACTGAGGgtaagcttca ... atttctgcagTCCTTTTATCTACCATGGGCAATGCTTGGGTTGGATGTGATATTTGGCTCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagtcttgtggagcaaattatgtttgattgtggttaatatactccatttctgcagTCCTTTTATCTACCATGGGCAATGCTTGGGTTGGATGTGATATTTGGCTCAGAGATACTCCCTGGCCTTCTGGGAATTCTCGTTGGACACACGTACTACT
                               ggttaat  putative branch site (score: 4)
                                         ctccatttct  putative PPT
              aaattatgtttgatt  TA-rich tract