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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAGCATATGCCTACACCTGAACAATGGACCAATGTCTTCAACCCAGCATTTTCATATTATGCATATTACTGCTATGCTAACTTATACACACTCAATAAGgtaggaaaattgccctcatacctctaattttcctcattttgctggaaaagtaacacttctgtgcaatttag

Basic information

species Oryza sativa
transcript LOC_Os05g28180.2
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g28180.3 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G416667_T01 (Zea mays), 5'ss of exon 13
AAAGCATATGCCTACACCTGAACAATGGACCAATGTCTTCAACCCAGCATTTTCATATTATGCATATTACTGCTATGCTAACTTATACACACTCAATAAGgtaggaaaattgccctcatacctct-aattttcctcattttgct-ggaaaagtaacacttctgtgcaatttag--
|||||| ||||| ||||||||||| ||||||||||| |||||||| ||||||||||||||||| || ||||||||||||||||||| ||| || || |||||    | ||   ||||      || |||||||  ||  || ||  ||   ||||   |||||| ||||||    
AAAGCACATGCCCACACCTGAACAGTGGACCAATGTGTTCAACCCTGCATTTTCATATTATGCGTACTACTGCTATGCTAACTTATTCACCCTAAACAAGgtgatcatatcttcctccccttcctcaattttctccacgtttctcagagtggtaatgattctgttcaattttcag

upper sequence: LOC_Os05g28180.3 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA01G29470.2 (Glycine max), 5'ss of exon 14
AAAGCATATGCCTACACCTGAACAATGGACCAATGTCTTCAACCCAGCATTTTCATATTATGCATATTACTGCTATGCTAACTTATACACACTCAATAAGgtaggaaaattgccctc------atacctctaattttc------------ctcattttgctggaaaagtaaca--cttctgtgcaatttag---------
||| || |||||||||||||| |||||||| ||||| ||||| || ||||||||||| ||||  |||||||| ||||| ||  | |||||  | || |||||| | || ||   |||      ||   || | ||||              | | | |      ||   ||||  ||||| |   | | |          
AAAACACATGCCTACACCTGAGCAATGGACTAATGTTTTCAATCCGGCATTTTCATACTATGTCTATTACTGTTATGCAAATCTTTACACCTTAAACAAGgtatgtaactttttctccagaatatgtatcaattttttacggcttatctatttactctttcaagaagaaaacaagcttcttttttactgattatggaaag

upper sequence: LOC_Os05g28180.3 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA03G07460.1 (Glycine max), 5'ss of exon 13
AAAGCATATGCCTACACCTGAACAATGGACCAATGTCTTCAACCCAGCATTTTCATATTATGCATATTACTGCTATGCTAACTTATACACACTCAATAAGgtaggaaaattgccctc---atacctct-aattttc-------------ctcattttgctggaaaagtaacacttctgtgcaatttag------------
||| || ||||||||||| || |||||||| ||||| ||||| |||||||||||||| ||||  |||||||| ||||| ||  | || ||  | || |||||| | || ||  |  |   |||  | | ||||||               ||| | |      |    |||||   | |      | |            
AAAACACATGCCTACACCGGAGCAATGGACTAATGTATTCAATCCAGCATTTTCATACTATGTCTATTACTGTTATGCAAATCTTTATACCTTAAACAAGgtatgtaacttttctcctgaatatgtatcaatttttggctgcttatctattcactctttcaagacgaaaacacgcttctttttactggttatggaaagaa

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|58687285|gb|CK075972.1|CK075972
EST:     TTTCATATTATGCATATTACTGCTATGCTAACTTATACACACTCAATAAG                         TTGCGTGAATCAAAAGGGATGACCACAATCAAATTCCGTCCCACATGCTGG
genomic: TTTCATATTATGCATATTACTGCTATGCTAACTTATACACACTCAATAAGgtaggaaaat ... tgcaatttagTTGCGTGAATCAAAAGGGATGACCACAATCAAATTCCGTCC-ACATGCTGG
EST: gi|33796571|gb|CF324153.1|CF324153
EST:     TTTCATATTATGCATATTACTGCTATGCTAACTTATACACACTCAATAAG                         TTGCGTGAATCAAAAGGGATGACCACAATCAAATTCCGTCCACATGCTGGC
genomic: TTTCATATTATGCATATTACTGCTATGCTAACTTATACACACTCAATAAGgtaggaaaat ... tgcaatttagTTGCGTGAATCAAAAGGGATGACCACAATCAAATTCCGTCCACATGCTGGC