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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAGCACTTGCAGGTCTGAGAAGAATCAGTTTAGATGGGTTGCGATGGCGCGTATTTGATGCTAAGGGTCAGgttaggattgtttttctagtttgagttgcaaggatgaacttattgtaaaaaggatagaggctgtgaggtaattttctatgtgatatag

Basic information

species Zea mays
transcript GRMZM2G044584_T03
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G044584_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os08g06474.1 (Oryza sativa), 5'ss of exon 2
AAAGCACTTGCAGGTCTGAGAAGAATCAGTTTAGATGGGTTGCGATGGCGCGTATTTGATGCTAAGGGTCAGgttaggattgttt----ttctagtttgagttgca-aggatgaacttattgtaaaaaggatagaggctgtgaggtaattttctatgtgatatag--------
||||||||||||||  ||||||| |||| ||||||||||||| ||||||| ||||||||||| |||||||||||||| | |  ||    || |  ||  | || |  | |||| | ||||    ||      |  || | ||  ||||  | || ||   | ||         
AAAGCACTTGCAGGATTGAGAAGGATCAATTTAGATGGGTTGAGATGGCGTGTATTTGATGCAAAGGGTCAGgttagcaatccttctgattttgcttcaatttacggaagatgtatttatgtggaatgcaggaatggttatgcagtaagctactttgctgtttatgttgatag

upper sequence: GRMZM2G044584_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os05g15370.1 (Oryza sativa), 5'ss of exon 2
AAAGCACTTGCAGGTCTGAGAAGAATCAGTTTAGATGGGTTGCGATGGCGCGTATTTGATGCTAAGGGTCAGgttaggattgtttttctagtttgagttgcaaggatgaacttattgtaaaaaggatagaggctgtgaggtaattttctatgtgatatag
||||||||||||||| |||||||||||| ||||||||| ||| ||||||| |||||||| || ||||| |||||||  ||| || | || |||  | | |  | | | |  ||  ||  ||| |  | ||       | |  | ||| | ||||  ||||
AAAGCACTTGCAGGTTTGAGAAGAATCAATTTAGATGGATTGAGATGGCGTGTATTTGACGCAAAGGGCCAGgttaccattcttctgctggttccaatggttaagctaatgttcatgggaaatgttttga-----ccaagctactttgtttgtgcgatag

upper sequence: GRMZM2G044584_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os05g15360.6 (Oryza sativa), 5'ss of exon 1
----------------------------AAAGCACTTGCAGGTCTGAGAAGAATCAGTTTAGATGGGTTGCGATGGCGCGTATTTGATGCTAAGGGTCAGgttaggattgtttttctagtttgagttgcaaggatgaacttattgtaaaaaggatagaggctgtgaggtaattttctatgtgatatag
                            |||||||||||||   |||||||||||| ||||||||| ||| ||||| | |||||||| || ||||| |||||||  ||| || |  | |||  |||||  | |   |  ||  ||   || || |      |   | |   || | | |||||||   
TGATAGTGCTGTTGTTTGAACTGAGCAAAAAGCACTTGCAGACTTGAGAAGAATCAATTTAGATGGTTTGAGATGGTGTGTATTTGACGCAAAGGGCCAGgttaccatttttctagtggttccagttgttaagcaaatattcatgggtaatggtttt---ttaccaagcctttgtttgtgtgatag--

upper sequence: GRMZM2G044584_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os05g15360.7 (Oryza sativa), 5'ss of exon 2
AAAGCACTTGCAGGTCTGAGAAGAATCAGTTTAGATGGGTTGCGATGGCGCGTATTTGATGCTAAGGGTCAGgttaggattgtttttctagtttgagttgcaaggatgaacttattgtaaaaaggatagaggctgtgaggtaattttctatgtgatatag
                |||||||||||| ||||||||| ||| ||||| | |||||||| || ||||| |||||||  ||| || |  | |||  |||||  | |   |  ||  ||   || || |      |   | |   || | | |||||||   
-------------ACTTGAGAAGAATCAATTTAGATGGTTTGAGATGGTGTGTATTTGACGCAAAGGGCCAGgttaccatttttctagtggttccagttgttaagcaaatattcatgggtaatggtttt---ttaccaagcctttgtttgtgtgatag--

upper sequence: GRMZM2G044584_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os05g15360.2 (Oryza sativa), 5'ss of exon 2
AAAGCACTTGCAGGTCTGAGAAGAATCAGTTTAGATGGGTTGCGATGGCGCGTATTTGATGCTAAGGGTCAGgttaggattgtttttctagtttgagttgcaaggatgaacttattgtaaaaaggatagaggctgtgaggtaattttctatgtgatatag
    |||||||||   |||||||||||| ||||||||| ||| ||||| | |||||||| || ||||| |||||||  ||| || |  | |||  |||||  | |   |  ||  ||   || || |      |   | |   || | | |||||||   
----CACTTGCAGACTTGAGAAGAATCAATTTAGATGGTTTGAGATGGTGTGTATTTGACGCAAAGGGCCAGgttaccatttttctagtggttccagttgttaagcaaatattcatgggtaatggtttt---ttaccaagcctttgtttgtgtgatag--

upper sequence: GRMZM2G044584_T02 (Zea mays), 5'ss of exon 2
lower sequence: Vv14s0171g00250.t01 (Vitis vinifera), 5'ss of exon 2
AAAGCACTTGCAGGTCTGAGAAGAATCAGTTTAGATGGGTTGCGATGGCGCGTATTTGATGCTAAGGGTCAGgttaggattgtttttctagtttgagttgcaaggatgaacttattgtaaaaaggatagaggctgtgaggtaattttctatgtgatatag----------------
||||||||||| || |||||| |||||| ||| || || ||||||||||| ||||||||||| || || |||||| |||| |   || || | |||  |  || | | |   || | |  | |      |   | | | |    | ||||     | | |                
AAAGCACTTGCTGGCCTGAGACGAATCAATTTGGAAGGTTTGCGATGGCGAGTATTTGATGCCAAAGGCCAGgtt-ggatagaagtt-taatatga--taaaatggttattatagtttttagaaacccaataatataatgctggtctctactcccttttgggataagaaatgccag

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|16378867|gb|BI992643.1|BI992643
EST:     TTTGATGCTAAGGGTCAG                         GTGCTCGGGCGATTGGCTTCCCAAATAGCTGTTGTGCTTCAAGGCAAGGAT
genomic: TTTGATGCTAAGGGTCAGgttaggattg ... tgtgatatagGTGCTCGGGCGATTGGCTTCCCAAATAGCTGTTGTGCTTCAAGGCAAGGAT
EST: gi|18385121|gb|BM418320.1|BM418320
EST:     GAATCAGTTTAGATGGGTTGCGATGGCGCGTATTTGATGCTAAGGGTCAG                         GTGCTCGGGCGATTGGCTTCCCAAATAGCTGTTGTGCTTCAAGGCAAGGAT
genomic: GAATCAGTTTAGATGGGTTGCGATGGCGCGTATTTGATGCTAAGGGTCAGgttaggattg ... tgtgatatagGTGCTCGGGCGATTGGCTTCCCAAATAGCTGTTGTGCTTCAAGGCAAGGAT
EST: gi|13315880|gb|BG410228.1|BG410228
EST:     GAATCAGTTTAGATGGGTTGCGATGGCGCGTATTTGATGCTAAGGGTCAG                         GTGCTCGGGCGATTGGCTTCCCAAATAGCTGTTGTGCTTCAAGGCAAGGAT
genomic: GAATCAGTTTAGATGGGTTGCGATGGCGCGTATTTGATGCTAAGGGTCAGgttaggattg ... tgtgatatagGTGCTCGGGCGATTGGCTTCCCAAATAGCTGTTGTGCTTCAAGGCAAGGAT
EST: gi|211282462|gb|FL053249.1|FL053249
EST:     GAATCAGTTTAGATGGGTTGCGATGGCGCGTATTTGATGCTAAGGGTCAG                         GTGCTCGGGCGATTGGCTTCCCAAATAGCTGTTGTGCTTCAAGGCAAGGAT
genomic: GAATCAGTTTAGATGGGTTGCGATGGCGCGTATTTGATGCTAAGGGTCAGgttaggattg ... tgtgatatagGTGCTCGGGCGATTGGCTTCCCAAATAGCTGTTGTGCTTCAAGGCAAGGAT
EST: gi|87153153|gb|DY397942.1|DY397942
EST:     GAATCAGTTTAGATGGGTTGCGATGGCGCGTATTTGATGCTAAGGGTCAG                         GTGCTCGGGCGATTGGCTTCCCAAATAGCTGTTGTGCTTCAAGGCAAGGAT
genomic: GAATCAGTTTAGATGGGTTGCGATGGCGCGTATTTGATGCTAAGGGTCAGgttaggattg ... tgtgatatagGTGCTCGGGCGATTGGCTTCCCAAATAGCTGTTGTGCTTCAAGGCAAGGAT
EST: gi|211445695|gb|FL278216.1|FL278216
EST:     GAATCAGTTTAGATGGGTTGCGATGGCGCGTATTTGATGCTAAGGGTCAG                         GTGCTCGGGCGATTGGCTTCCCAAATAGCTGTTGTGCTTCAAGGCAAGGAT
genomic: GAATCAGTTTAGATGGGTTGCGATGGCGCGTATTTGATGCTAAGGGTCAGgttaggattg ... tgtgatatagGTGCTCGGGCGATTGGCTTCCCAAATAGCTGTTGTGCTTCAAGGCAAGGAT