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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcaattctttgtggctttttatatgcacttcttgtttgattttccgcaagaatacagtatgtctataatatgacctagtatttgtattgcagGATATTGTTTGATGATCTGCACAAGACAGGGATCTTTACATGGGATTACTTGCACCACCTAGGTTCTAACAAGTTTGGTCTGATGCGAAGCTATATCACA

Basic information

species Oryza sativa
transcript LOC_Os02g10430.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g10430.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G006277_T01 (Zea mays), 3'ss of exon 3
------------------------------------gtaagcaattct-ttgtggcttttta-tatgcacttcttgtttgattttccgcaagaataca-gtatgtctataatatgacctagtatt-tgtat-tgcagGATATTGTTTGATGATCTGCACAAGACAGGGATCTTTACATGGGATTACTTGCACCACCTAGGTTCTAACAAGTTTGGTCTGATGCGAAGCTATATCACA
                                    ||   || |  | |||  |   |    | ||   ||  | | |          || ||||   | |||||      |||| ||  |||| | |   || |||||| | ||||||||  ||||||||||||||||||| |||||||||||||||||||| || ||||| ||||| ||  |||||||| |||  || |||| |
gtgagggttgtcctgtttcatagcatgtttttctcagttctcagtcatattgcagaagtcagctgtgacatttctatctatcaaataaaaaaaatatttgcatgtcgggttcatgatctgctattgtttgcgtgtagGATACTCTTTGATGACTTGCACAAGACAGGGATCTTCACATGGGATTACTTGCACCATCTCGGTTCAAACAAATTCAGTCTGATGAGAAATTACATCAGA
















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|29659935|gb|CB656210.1|CB656210
EST:     AGGTTTTCCCCCACATAATGTCAATTGATCCTGTTTCGTNNNNNNNNNTA                         GATATTGTTTGATGATCTGCACAAGACAGGGATCTTTACATGGGATTACTT
genomic: AGGTTTTCCCCCACATAATGTCAATTGATCCTGTTTCGTAAAAAAAAATAgtaagcaatt ... tgtattgcagGATATTGTTTGATGATCTGCACAAGACAGGGATCTTTACATGGGATTACTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gattttccgcaagaatacagtatgtctataatatgacctagtatttgtattgcagGATATTGTTTGATGATCTGCACAAGACAGGGATCTTTACATGGGATTACTTGCACCACCTAGGTTCTAACAAGTTTGGTCTGATGCGAAGCTATATCACA
 gtttgat  putative branch site (score: 5)
                    tatgtctataatat  TA-rich tract