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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaatttactctaattatatatctattcatttggttgcctatattcccccagctgtctcaatggtctctgttttttgtttgattggttatgtttgttaaagGCATAGCCTGAAGGAAGTTTTGGATAGCCCAAGTGTGATGACACTAATAAAAGATACAAAGGCGGCGCAGGAG

Basic information

species Oryza sativa
transcript LOC_Os04g56480.2
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g56480.3 (Oryza sativa), 3'ss of exon 10
lower sequence: GRMZM2G044011_T01 (Zea mays), 3'ss of exon 11
aaatttactctaattatatatctattcatttggttgcctatattcccccagctgtctcaatg----gtctctgttttttgtttgattggttatgtttgttaaagGCATAGCCTGAAGGAAGTTTTGGATAGCCCAAGTGTGATGACACTAATAAAAGATACAAAGGCGGCGCAGGAG
     ||||  | |    ||  |||| ||||| |  | | | | |    | ||||   | ||     |||    || |  ||| | |||||   ||||||  ||||||||  | |||||||||||||| |  ||| |||||||| |||| |||||||||||||| || || ||||||
-tggctactggattgtgttacttatttatttgatc-cttttgtccttttacctgttcaagtgtcctatcttaacttctatttttactggtttcatttgtt--agGCATAGTTTAAAGGAAGTTTTGGACACACCAGGTGTGATGGCACTGATAAAAGATACAAAAGCAGCACAGGAG
















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|87006648|gb|CI295031.1|CI295031
EST:     ATTGAGAACAAACAGCGCATTGTTCTTGCACATGCACCTTCAGGTTACAA                         GCATAGCCTGAAGGAAGTTTTGGATAGCCCAAGTGTGATGACACTAATAAA
genomic: ATTGAGAACAAACAGCGCATTGTTCTTGCACATGCACCTTCAGGTTACAAgtaagatatt ... tttgttaaagGCATAGCCTGAAGGAAGTTTTGGATAGCCCAAGTGTGATGACACTAATAAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccccagctgtctcaatggtctctgttttttgtttgattggttatgtttgttaaagGCATAGCCTGAAGGAAGTTTTGGATAGCCCAAGTGTGATGACACTAATAAAAGATACAAAGGCGGCGCAGGAG
                              gtttgat  putative branch site (score: 5)
                        ttttttgtttgatt  TA-rich tract