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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatataagacatacatcacctttggattcagttaattgaatggatgtggttagtgattgtggattaatacaattatggtttttggaacagGTTATCAGTGTAAAGGCAGTTGCCATTGCCTTGAAGCTGTCATTTGGTGGATCAAATCAGTTCATCTACATCCAAACATGGTTCTTCATAGTAGTTGTTA

Basic information

species Oryza sativa
transcript LOC_Os02g29510.4
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g29510.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G092991_T03 (Zea mays), 3'ss of exon 5
gtatataagacatacatcacctttggattcagttaattgaatggatgtggttagtgattgtggattaatacaattatggtttttggaacagGTTATCAGTGTAAAGGCAGTTGCCATTGCCTTGAAGCTGTCATTTGGTGGATCAAATCAGTTCATCTACATCCAAACATGGTTCTTCATAGTAGTTGTTA
||| || |||  ||| ||| |||   |||   ||| ||  |   || || | | | ||  |  ||||| | |||| |    || ||  ||||||||||||||||| |||||||| ||||| || ||||| |||||||||||||||||||| ||||||||| |||| |||||||||||||||||||| || |
gtacatgagaattacgtcatcttaatattagattatttttaaaaat-tgctcatttatcttctattaacataattttatgattggg--cagGTTATCAGTGTAAAAGCAGTTGCTATTGCTTTAAAGCTATCATTTGGTGGATCAAATCAATTCATCTACGTCCAGACATGGTTCTTCATAGTAGTAGTCA
















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|29670491|gb|CB666766.1|CB666766
EST:     GGAAGATGCTTGTTTATATTGCAATCTGTTCAACAATGGGATCTCTCACG                         GTTATCAGTGTAAAGGCAGATGCCCATTGCCTTGAAGCTGTCATTTG
genomic: GGAAGATGCTTGTTTATATTGCAATCTGTTCAACAATGGGATCTCTCACGgtatataaga ... tttggaacagGTTATCAGTGTAAAGGCAGTTGCC-ATTGCCTTGAAGCTGTCATTTG
EST: gi|29681128|gb|CB677403.1|CB677403
EST:     GGAAGATGCTTGTTTATATTGCAATCTGTTCAACAATGGGATCTCTCACG                         GTTATCAGTGTAAAGGCAGTTGCCATTGCCTTGAAGCTGTCATTTGGTGGA
genomic: GGAAGATGCTTGTTTATATTGCAATCTGTTCAACAATGGGATCTCTCACGgtatataaga ... tttggaacagGTTATCAGTGTAAAGGCAGTTGCCATTGCCTTGAAGCTGTCATTTGGTGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgaatggatgtggttagtgattgtggattaatacaattatggtttttggaacagGTTATCAGTGTAAAGGCAGTTGCCATTGCCTTGAAGCTGTCATTTGGTGGATCAAATCAGTTCATCTACATCCAAACATGGTTCTTCATAGTAGTTGTTA
                          gattaat  putative branch site (score: 3)
                                           ttttt  putative PPT
                           attaatacaattatgg  TA-rich tract