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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CACAGAAGCTCTTGAGTTTGGTCAGAAAAAGTTGACGCCATTTGGGAAAGTGCCCAAGTACGTTGAGAAACTAGAGgtaacttttcctaaacctacatatgcttatattagacagttttcaggtcatgcaaattctgtcttcttgtcaggccatcaatttagagaactggcaatga...

Basic information

species Oryza sativa
transcript LOC_Os01g56820.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g56820.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G085602_T03 (Zea mays), 5'ss of exon 4
CACAGAAGCTCTTGAGTTTGGTCAGAAAAAGTTGACGCCATTTGGGAAAGTGCCCAAGTACGTTGAGAAACTAGAGgtaacttttcct-aaacctacatatgcttatattagacagttttcaggtcatgcaaattctgtcttcttgtcaggccatcaatttagaga--actggcaatga-----------------------------------------------------------
||||||||||||||| ||||| |||||||| |||||  |||||  ||| ||  |||||||  |||||||||||||||||  |||||||  | ||||||| |      |  |  | |    ||| | |   || || | | ||    | ||  || ||||  |  ||  ||| |                                                                 
CACAGAAGCTCTTGACTTTGGCCAGAAAAAATTGACATCATTTCAGAAGGTTACCAAGTATATTGAGAAACTAGAGgtactttttccttgagcctacatgtctcaggaccattctg---acagctaaaataatttttattttaacat-agaacaccaatggattgattacttgttccagatgtttaattgctactgttattacagaaagatattaaaatacaacttttgattgtatag

upper sequence: LOC_Os01g56820.1 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv18s0001g13280.t01 (Vitis vinifera), 5'ss of exon 4
CACAGAAGCTCTTGAGTTTGGTCAGAAAAAGTTGACGCCATTTGGGAAAGTGCCCAAGTACGTTGAGAAACTAGAGgtaacttttcctaaacctacatatgcttatattagacagttttcaggtcatgcaaattctgtcttcttgtcaggccatcaatttagagaactggcaatga--
|||||||||||| || |||| ||||| ||||||||| || ||||| |||||||  || || |||||||| || || |||  | ||  |   |  |   |  |  || ||| |||  ||||   |||   |  || ||| |  |  ||||  | | ||   | |   ||     ||   
CACAGAAGCTCTGGAATTTGCTCAGACAAAGTTGACCCCTTTTGGAAAAGTGCAAAATTATGTTGAGAAGCTTGAAgtatgtcttttt---ctgaggcaaacc-atcttaaaca--tttctactcaatta--ttttgt-tcttcatcagaac-taaagacaaattgctcctgctgcag
















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|58695745|gb|CK084432.1|CK084432
EST:     AAAAGTTGACGCCATTTGGGAAAGTGCCCAAGTACGTTGAGAAACTAGAG                         GACTTTATGGCCCTCCTAGCTTATGAAGAGCCTGAGAAGTCACCTATGTTT
genomic: AAAAGTTGACGCCATTTGGGAAAGTGCCCAAGTACGTTGAGAAACTAGAGgtaacttttc ... atatgtatagGACTTTATGGCCCTCCTAGCTTATGAAGAGCCTGAGAAGTCACCTATGTTT
EST: gi|40486859|gb|BX898175.1|BX898175
EST:     AAAAGTTGACGCCATTTGGGAAAGTGCCCAAGTACGTTGAGAAACTAGAG                         GACTTTATGGCCCTCCTAGCTTATGAAGAGCCTGAGAAGTCACCTATGTTT
genomic: AAAAGTTGACGCCATTTGGGAAAGTGCCCAAGTACGTTGAGAAACTAGAGgtaacttttc ... atatgtatagGACTTTATGGCCCTCCTAGCTTATGAAGAGCCTGAGAAGTCACCTATGTTT
EST: gi|117234957|gb|CT847981.1|CT847981
EST:     AAAAGTTGACGCCATTTGGGAAAGTGCCCAAGTACGTTGAGAAACTAGAG                         GACTTTATGGCCCTCCTAGCTTATGAAGAGCCTGAGAAGTCACCTATGTTT
genomic: AAAAGTTGACGCCATTTGGGAAAGTGCCCAAGTACGTTGAGAAACTAGAGgtaacttttc ... atatgtatagGACTTTATGGCCCTCCTAGCTTATGAAGAGCCTGAGAAGTCACCTATGTTT