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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcgtctcctcttttgcagctgcattactctgctgaaactaggtctcttcatgaatttttataacctgaactgcttttcactgcagAAATTCCTTGTTGACTTTATGGATTGTGTGTTGTCATGCCGCTTTGGGAACTTCTTGTGCAATAG

Basic information

species Oryza sativa
transcript LOC_Os08g44260.1
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g44260.1 (Oryza sativa), 3'ss of exon 16
lower sequence: GRMZM2G449163_T01 (Zea mays), 3'ss of exon 8
gtaagtcgtctcctcttttgcagctgcattactctgctgaaactaggtctcttcatgaatttttataacctgaactgcttttcactgcagAAATTCCTTGTTGACTTTATGGATTGTGTGTTGTCATGCCGCTTTGGGAACTTCTTGTGCAATAG
||||| | |||  || |   ||  |  |    || |||  ||    ||| | |     | |  ||     | || || ||||   ||||||||||||| ||||| ||||||||||||||| | || || ||||||||||||||||||||||||||
gtaagccttcttttcctccacaattagaagggtcagctagaa----gtcccatggaatactcataatctttaaagtgattttt-ttgcagAAATTCCTAGTTGATTTTATGGATTGTGTGCTATCGTGTCGCTTTGGGAACTTCTTGTGCAATAG
















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|29675876|gb|CB672151.1|CB672151
EST:     GTATTTCTCAGTTGTTACGTTTGTATCCATCTGCATTTGAGTTCTCATCT                         AAATTCCTTGTTGACTTTATGGATTGTGTGTTGTCATGCCGCTTTGGGAAC
genomic: GTATTTCTCAGTTGTTACGTTTGTATCCATCTGCATTTGAGTTCTCATCTgtaagtcgtc ... ttcactgcagAAATTCCTTGTTGACTTTATGGATTGTGTGTTGTCATGCCGCTTTGGGAAC
EST: gi|58610861|gb|CK038573.1|CK038573
EST:     GTATTTCTCAGTTGTTACGTTTGTATCCATCTGCATTTGAGTTCTCATCT                         AAATTCCTTGTTGACTTTATGGATTGTGTGTTGTC
genomic: GTATTTCTCAGTTGTTACGTTTGTATCCATCTGCATTTGAGTTCTCATCTgtaagtcgtc ... ttcactgcagAAATTCCTTGTTGACTTTATGGATTGTGTGTTGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctgaaactaggtctcttcatgaatttttataacctgaactgcttttcactgcagAAATTCCTTGTTGACTTTATGGATTGTGTGTTGTCATGCCGCTTTGGGAACTTCTTGTGCAATAG
                           ttataac  putative branch site (score: 2)
                                       ctgcttttc  putative PPT
                ttcatgaatttttata  TA-rich tract