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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaatgttttttccttttattttattattattaatattattatttggggttatttaatttgttgagctagtaatttaatttggtctgtaaaatgtttacagGTATTGTCTTTCAGGCTCATCTGATTCAATGATAAG

Basic information

species Oryza sativa
transcript LOC_Os12g06810.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g06810.2 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G167999_T02 (Zea mays), 3'ss of exon 7
aaatgttttttccttttattttattattattaatattattatttggggttatttaatttgttgagctagtaatttaat--ttggtctgtaaaatgtttacagGTATTGTCTTTCAGGCTCATCTGATTCAATGATAAG
   | |    | ||  || |    |    |  || ||   | ||     || |   | | || | | |   ||||  |  | | | | || ||||||| ||||||||| || || || ||||||||||||||||||||
-tgtttaccatgctagtactcagctggagtgtat-ttgaaacttttaaatactgtctgttttcatcaaaccatttgctaatagttttttacaatgttttcagGTATTGCCTATCGGGATCATCTGATTCAATGATAAG
















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|29678630|gb|CB674905.1|CB674905
EST:     AGAGGGCACACTGACAATATCAGGGCTTTACTTCTTGATCCTACTGGCAG                         GTATTGTCTTTCAGGCTCATCTGATTCAATGATAAG
genomic: AGAGGGCACACTGACAATATCAGGGCTTTACTTCTTGATCCTACTGGCAGgtttgtgtga ... atgtttacagGTATTGTCTTTCAGGCTCATCTGATTCAATGATAAG
EST: gi|29670913|gb|CB667188.1|CB667188
EST:     AGAGGGCACACTGACAATATCAGGGCTTTACTTCTTGATCCTACTGGCAG                         GTATTGTCTTTCAGGCTCATCTGATTCAATGATAAG
genomic: AGAGGGCACACTGACAATATCAGGGCTTTACTTCTTGATCCTACTGGCAGgtttgtgtga ... atgtttacagGTATTGTCTTTCAGGCTCATCTGATTCAATGATAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gggttatttaatttgttgagctagtaatttaatttggtctgtaaaatgtttacagGTATTGTCTTTCAGGCTCATCTGATTCAATGATAAG
                          atttaat  putative branch site (score: 4)
                     tagtaatttaattt  TA-rich tract