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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ataaatgtgctttgtgtaaagaaacatacctagtatgaggcatgtgtcctattgtgtttccaatatgatatatgtgttgctaacccttccttttgaacagATGATGATATTATGGGCACACTTCACCGATTTAGACCTAGTTTTCTTGTGAAAATAAATCCTCCAATGTACCTTCAGCCTTCCGAATTCCACCACATGTG

Basic information

species Oryza sativa
transcript LOC_Os01g15300.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g15300.1 (Oryza sativa), 3'ss of exon 10
lower sequence: GRMZM2G146047_T03 (Zea mays), 3'ss of exon 10
ataaatgtgctttgtgtaaagaaacatacctagtatgaggcatgtgtcctattgtgtttccaatatgatatatgtgttgctaacccttccttttgaacagATGATGATATTATGGGCACACTTCACCGATTTAGACCTAGTTTTCTTGTGAAAATAAATCCTCCAATGTACCTTCAGCCTTCCGAATTCCACCACATGTG
|   |  ||    |     | |  |    |  ||||        | |  |  |    ||  | ||  |  | |  |  |||||| |  | ||||||  |||||||| | || ||     ||| ||||| || || || ||||||||||| ||||| |||||||||| ||  ||||||||||| |||||| ||||||  ||
aattacatgggaagaccccaaaccctagacgggtattctaacaatattttcatacaatttgagtaacacttgtcagcagctaactcgcctttttgactagATGATGTTGTTGTGATGCAACTGCACCGGTTCAGGCCAAGTTTTCTTGTCAAAATCAATCCTCCAAAGTTTCTTCAGCCTTCTGAATTCAACCACACATG
















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|88301558|gb|CI597251.1|CI597251
EST:     TGCATTTCATAACCTTGTGCCAACAGCACTTAACTACATCTCTGAAATTT                         ATGATGATATTATGGGCACACTTCACCGATTTAGACCTAGTTTTCTTGTGA
genomic: TGCATTTCATAACCTTGTGCCAACAGCACTTAACTACATCTCTGAAATTTgtacgtcctt ... ttttgaacagATGATGATATTATGGGCACACTTCACCGATTTAGACCTAGTTTTCTTGTGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtcctattgtgtttccaatatgatatatgtgttgctaacccttccttttgaacagATGATGATATTATGGGCACACTTCACCGATTTAGACCTAGTTTTCTTGTGAAAATAAATCCTCCAATGTACCTTCAGCCTTCCGAATTCCACCACATGTG
                                tgctaac  putative branch site (score: 1)
                                  ctaacccttcctttt  CT-rich tract
                aatatgatatatgt  TA-rich tract