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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATGTTTTCCAACTTTGGCAACAATACCTGTCTGGATTGGCCTCTACCAAGCCCTTTCAAATGTAGCAAACGAGgtaaaactcaaatcctgcttcctaatatttgcttcattaagaggattttgttctaagtggcttatatttctctgaag

Basic information

species Oryza sativa
transcript LOC_Os01g05800.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g05800.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM5G839422_T01 (Zea mays), 5'ss of exon 5
GATGTTTTCCAACTTTGGCAACAATACCTGTCTGGATTGGCCTCTACCAAGCCCTTTCAAATGTAGCAAACGAGgtaaaactcaaatcctgcttcctaatatttgcttcattaagaggatttt-gttctaagtggcttatatttctctgaag
||||||||||||| || |||||||| ||||| |||||||| || ||||| |||||||||||||||||||| |||||||   |  | |||  || | | |   |||||| ||| || |  |||| |  || |||| ||| |||  |  |||||
GATGTTTTCCAACGTTAGCAACAATTCCTGTATGGATTGGTCTTTACCAGGCCCTTTCAAATGTAGCAAATGAGgtaag--ttcagtccaactgctttaagcttgcttgattgagtgtttttttgggctgagtgtcttttatgaca-tgaag

upper sequence: LOC_Os01g05800.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G110063_T01 (Zea mays), 5'ss of exon 6
GATGTTTTCCAACTTTGGCAACAATACCTGTCTGGATTGGCCTCTACCAAGCCCTTTCAAATGTAGCAAACGAGgtaaaactcaaatcctgcttcctaatatttgcttcattaagaggattttgtt--ctaagtggcttatatttctctgaag
||||||||||||| ||||||||||||||||| |||||||| || ||||| || ||||||||||||||||| |||||||   |  | |||  || | | |   |||||| |||||| |  |||| |   || ||||  || |||   | |||||
GATGTTTTCCAACATTGGCAACAATACCTGTATGGATTGGTCTTTACCAGGCACTTTCAAATGTAGCAAATGAGgtaag--tttagtccaactactttaagcttgcttgattaagtgttttttttgggctgagtgtgttctatga-tgtgaag

upper sequence: LOC_Os01g05800.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA11G14960.1 (Glycine max), 5'ss of exon 5
GATGTTTTCCAACTTTGGCAACAATACCTGTCTGGATTGGCCTCTACCAAGCCCTTTCAAATGTAGCAAACGAGgtaa-----aactcaaatcctgcttcct--aatatttgcttcattaagaggattttgttctaagtggcttatatttctc-tgaag-------------------
| ||||| |||||| |||| ||||| || ||||||||||| |||||||||||  | |||||||| ||||| |||||||      |   |||   |  ||  |  |  |     |||  |      |||     |  |     | || || ||  | | |                   
GTTGTTTACCAACTCTGGCTACAATTCCAGTCTGGATTGGTCTCTACCAAGCTTTATCAAATGTGGCAAATGAGgtaattaatgatataaacttttattatttgagcagagatttcgatggacaaattacacacagaaaatatgattttgctaattatgttaaatctttaatttgaag

upper sequence: LOC_Os01g05800.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA12G06920.1 (Glycine max), 5'ss of exon 5
GATGTTTTCCAACTTTGGCAACAATACCTGTCTGGATTGGCCTCTACCAAGCCCTTTCAAATGTAGCAAACGAGgtaaaactcaa--atcctgcttcctaatatttg--------cttcattaagaggattttgttctaagtggcttatatttctctgaag----------------------
| ||||| ||||||||||| ||||| || ||||||||||| |||||||||||  | |||||||| ||||| ||||||| | | ||  ||      |  ||  |||||         ||   |      |||     |  |     | || |||   | |                        
GTTGTTTACCAACTTTGGCTACAATTCCAGTCTGGATTGGTCTCTACCAAGCTTTATCAAATGTGGCAAATGAGgtaataattaattatataaacttttatcatttgagcggagattttgatggacaaattacacacagaaaatatgattttttgttaattatggaaaatctttaatttgaag

upper sequence: LOC_Os01g05800.1 (Oryza sativa), 5'ss of exon 5
lower sequence: Vv06s0004g04460.t01 (Vitis vinifera), 5'ss of exon 5
GATGTTTTCCAACTTTGGCAACAATACCTGTCTGGATTGGCCTCTACCAAGCCCTTTCAAATGTAGCAAACGAGgtaaaactcaaatcctgcttcctaatatttgct-tcattaagaggattttgtt-----ctaagtggcttatatt---tctctgaag--------------
||||||| ||||||||||| |||||||| |||||||| ||  | || ||||| ||||||||||| ||||| ||||| ||  | ||   ||  |  ||  ||| || | |        ||||| |  |      ||| | | ||||  |   | ||| ||               
GATGTTTCCCAACTTTGGCCACAATACCAGTCTGGATAGGTTTGTATCAAGCTCTTTCAAATGTGGCAAATGAGgtgaa--taaatatctcatctctcttatgtgatgttgacggttggattctaatgcagattaaattgtttatgctaactatctcaacctttttactcaaag

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|29615536|gb|CB620548.1|CB620548
EST:     TACCTGTCTGGATTGGCCTCTACCAAGCCCTTTCAAATGTAGCAAACGAG                         GGATTACTGACAGAAGGATTTTTCTGGATTCCATCTTTGGGAGGCCCTACA
genomic: TACCTGTCTGGATTGGCCTCTACCAAGCCCTTTCAAATGTAGCAAACGAGgtaaaactca ... ttctctgaagGGATTACTGACAGAAGGATTTTTCTGGATTCCATCTTTGGGAGGCCCTACA
EST: gi|13896049|gb|AU182385.1|AU182385
EST:     TACCTGTCTGGATTGGCCTCTACCAAGCCCTTTCAAATGTAGCAAACGAG                         GGATTACTGACAGAAGGATTTTTCTGGATTCCATCTTTGGGAGGCCCTACA
genomic: TACCTGTCTGGATTGGCCTCTACCAAGCCCTTTCAAATGTAGCAAACGAGgtaaaactca ... ttctctgaagGGATTACTGACAGAAGGATTTTTCTGGATTCCATCTTTGGGAGGCCCTACA
EST: gi|29620327|gb|CB625339.1|CB625339
EST:     TACCTGTCTGGATTGGCCTCTACCAAGCCCTTTCAAATGTAGCAAACGAG                         GGATTACTGACAGAAGGATTTTTCTGGATTCCATCTTTGGGAGGCCCTACA
genomic: TACCTGTCTGGATTGGCCTCTACCAAGCCCTTTCAAATGTAGCAAACGAGgtaaaactca ... ttctctgaagGGATTACTGACAGAAGGATTTTTCTGGATTCCATCTTTGGGAGGCCCTACA
EST: gi|58694651|gb|CK083338.1|CK083338
EST:     TACCTGTCTGGATTGGCCTCTACCAAGCCCTTTCAAATGTAGCAAACGAG                         GGATTACTGACAGAAGGATTTTTCTGGATTCCATCTTTGGGAGGCCCTACA
genomic: TACCTGTCTGGATTGGCCTCTACCAAGCCCTTTCAAATGTAGCAAACGAGgtaaaactca ... ttctctgaagGGATTACTGACAGAAGGATTTTTCTGGATTCCATCTTTGGGAGGCCCTACA