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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTGGAAGTTCGGGGACGAGGGGAACAAGTACTTCCGCCACGCCACCGGCCAAATCTACGCCGTTTCCAAGGATCTCGCCGCCTACATCTCCATCAACCAgtacgtacgcttgatcctagcttgtgtgcttctgaaattgtgacgtgatatgctctgaatttttcttcttctag

Basic information

species Oryza sativa
transcript LOC_Os01g65590.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g65590.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G119265_T02 (Zea mays), 5'ss of exon 7
ACTGGAAGTTCGGGGACGAGGGGAACAAGTACTTCCGCCACGCCACCGGCCAAATCTACGCCGTTTCCAAGGATCTCGCCGCCTACATCTCCATCAACCAgt-------------acgtacgcttgatcctagcttgtgtgcttctgaaattgtg-acgtgatatgctctgaatttttcttcttctag
||||||||||||| |||||||| ||||||||||||||||||||||||||||||||||||||| | |||||||| ||||||||||||||||||||||||||||             || ||  | | || | | | ||||  |   |     ||||    |||  |||  ||  |   || | ||| ||
ACTGGAAGTTCGGCGACGAGGGCAACAAGTACTTCCGCCACGCCACCGGCCAAATCTACGCCATCTCCAAGGACCTCGCCGCCTACATCTCCATCAACCAgttatgtttccggacacatatacataatgcca-cgtgtggccgcgttcgtctgtgcgtctgacgtgcg-tgcgtgcatcgt-ttccag

upper sequence: LOC_Os01g65590.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G431006_T01 (Zea mays), 5'ss of exon 6
ACTGGAAGTTCGGGGACGAGGGGAACAAGTACTTCCGCCACGCCACCGGCC----AAATCTACGCCGTTTCCAAGGATCTCGCCGCCTACATCTCCATCAACCAgtacgtacgcttgatcctagcttgtgtgcttctgaaattgtgacgtgatatgct-ctgaatttttcttcttctag-----------------------
    ||||||||| ||| |||| ||||||||||||||||||||||||||||    ||||||||||| | ||||| || |||||||||||||||||||||||| |||   |     |     ||  |    ||| |       ||| | || || |||  | |  ||  |||    ||                         
----GAAGTTCGGTGACTAGGGCAACAAGTACTTCCGCCACGCCACCGGCCGGCCAAATCTACGCCATCTCCAAAGACCTCGCCGCCTACATCTCCATCAACTAgt-tatttctatatatatatatatcctgcattgcgttgtgtcatgtcatgtgcggccgcgttcctctgtgcctgacgtagtgacgtacgtgtttccag

upper sequence: LOC_Os01g65590.1 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv18s0089g01040.t01 (Vitis vinifera), 5'ss of exon 6
ACTGGAAGTTCGGGGACGAGGGGAACAAGTACTTCCGCCACGCCACCGGCCAAATCTACGCCGTTTCCAAGGATCTCGCCGCCTACATCTCCATCAACCAgtacgtacgcttgat-cctagcttgtgtgcttctgaaattg---------tgacg-tgatatgctctgaatttttctt-cttctag
 |||||| || || || || ||||||||||| ||| | |||||||| || |||||||| ||  |||| |||||||| || |||||||| || ||||||  ||  || |      | |||  |  |||| ||   |||  ||         ||| | |||||  | |  || || | |  |||  ||
TCTGGAAATTTGGAGAGGAAGGGAACAAGTATTTCAGGCACGCCACTGGTCAAATCTATGCAATTTCGAAGGATCTAGCGGCCTACATTTCAATCAACGCgtgagttcatcatctgccttacacgtgtcctcaggaacgtggatctagcatgaagctgatacacacaaaaattgtttgacttgcag

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|27548070|gb|CA766088.2|CA766088
EST:     CAAATCTACGCCGTTTCCAAGGATCTCGCCGCCTACATCTCCATCAACCA                         GCCGATCCTGCACAGGTTCGCAAACGAGGACGTCTCCCTCGGCGCGTGGCT
genomic: CAAATCTACGCCGTTTCCAAGGATCTCGCCGCCTACATCTCCATCAACCAgtacgtacgc ... cttcttctagGCCGATCCTGCACAGGTTCGCAAACGAGGACGTCTCCCTCGGCGCGTGGCT