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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTGGTCTCGCAAGAACAGGTCCTAGTGGAGACCAAACCCACGTGTCAACTCGTGTTATGGGAACTTATGGATACGCGGCTCCAGAATATGTCATGACTGgtaagcaaggatttcctatcatcaagccaacaattcgaggataaaaatgaacttgtccccaagaatgaatagacactcatggtacttgacctagtccaattatgttaatcctcaatcaccaattaacttgacgcag

Basic information

species Zea mays
transcript GRMZM2G050701_T02
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G050701_T02 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os06g45280.1 (Oryza sativa), 5'ss of exon 5
TTTGGTCTCGCAAGAACAGGTCCTAGTGGAGACCAAACCCACGTGTCAACTCGTGTTATGGGAACTTATGGATACGCGGCTCCAGAATATGTCATGACTGgtaagcaa--ggatttcc---tatcatcaagccaacaattcgaggata--aaaatgaactt---gtccccaagaatgaatagacac-tcatggtacttgacctagtcca-attatgttaatcctcaatcaccaattaacttgacgcag
||||| || ||| |||| || |||||||||||||||||||| || |||||||| || ||||| |||||||| || || ||||| |||||||||||||| ||| |||||  | || |||   |||  | |      |||  ||   ||     | || | ||   || |  ||| |||||||  ||  |||| |||  |||| |  |  |  |||  ||  | ||| | | |   || |  ||   |||
TTTGGCCTAGCACGAACTGGACCTAGTGGAGACCAAACCCATGTATCAACTCGGGTCATGGGTACTTATGGCTATGCAGCTCCTGAATATGTCATGACAGgtgagcaatggaatctccctgtatttttagaatgccaacccgttcattcttgagtgcatttaatgttcttaagtatgaatatgcatatcattgtagctgacatcatgtatgttaaattgttactctaac-cagtttgatctgttacag

upper sequence: GRMZM2G050701_T02 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA08G03070.1 (Glycine max), 5'ss of exon 5
TTTGGTCTCGCAAGAACAGGTCCTAGTGGAGACCAAACCCACGTGTCAACTCGTGTTATGGGAACTTATGGATACGCGGCTCCAGAATATGTCATGACTGgtaagcaaggatttcctatcatcaagccaacaattcgaggataaaaatgaacttgtccccaagaatgaatagacactcatgg-tacttgacctagtccaattatgttaatcctcaatcaccaattaacttgacgcag
||||| || ||||     ||||| |  || ||||||||||| || ||||| || || ||||| || ||||||||||| ||||| || ||||||||||||||| ||  |       ||||      |  ||   ||| |    |    | |     | | ||  |||    ||| | ||||      |  |    || ||||||                                  
TTTGGCCTTGCAAAGGATGGTCCGATGGGGGACCAAACCCATGTTTCAACACGAGTAATGGGCACATATGGATACGCTGCTCCTGAGTATGTCATGACTGgtgagttacccgaagctattgatg-gtgaatttttccatttcatttctaa----tttctcagaaatatggaga-attcataaacgataaaaaaggtgcaattactc-------------------------------

upper sequence: GRMZM2G050701_T02 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA05G36500.2 (Glycine max), 5'ss of exon 5
TTTGGTCTCGCAAGAACAGGTCCTAGTGGAGACCAAACCCACGTGTCAACTCGTGTTATGGGAACTTATGGATACGCGGCTCCAGAATATGTCATGACTGgtaagcaaggatttcctatcatcaagccaacaattcgaggataaaaatg--aacttgtccccaagaatgaatagacactcatggtacttgacctagtccaattatgttaatcctcaatcaccaattaacttgacgcag
||||| || ||||     ||||| |  || ||||||||||| || ||||| || || ||||| || |||||||| || ||||| || ||||||||||||||| ||  |       ||||    | ||  |   ||      | |   |   || || ||   || |  || |   ||   ||| ||    |   ||| ||||| |                                 
TTTGGCCTTGCAAAGGATGGTCCGATGGGGGACCAAACCCATGTTTCAACACGAGTAATGGGCACATATGGATATGCTGCTCCTGAGTATGTCATGACTGgtgagttactcaaagctattg--atgctgatttttttcctttcatttttctaatttctcagaaatatggatttatcataaatgata---aaaaaagtgcaattct---------------------------------

upper sequence: GRMZM2G050701_T02 (Zea mays), 5'ss of exon 5
lower sequence: AT2G07180.2 (Arabidopsis thaliana), 5'ss of exon 6
TTTGGTCTCGCAAGAACAGGTCCTAGTGGAGACCAAACCCACGTGTCAACTCGTGTTATGGGAACTTATGGATACGCGGCTCCAGAATATGTCATGACTGgtaagcaaggatttcctatcatcaagccaacaattcgaggataaaaatgaacttgtccccaagaatgaatagacactcatgg-tacttgacctagtccaattatgttaatcctcaatcaccaattaac---ttgacgcag------------------------------------------
||||| || ||||     ||||| || ||||||||||| || ||||| || ||||||||||| ||||| |||||||| |||||||| ||||||||||| |||  |     ||| | |  | ||| ||  |    |  |      |  |  | ||| | | |||||    |  | | |||||| |  ||   | ||     |||       ||    | |   ||   |   ||||  |                                            
TTTGGACTGGCAAAGGATGGTCCAAGAGGAGACCAAACACATGTGTCTACACGTGTTATGGGGACTTACGGATACGCTGCTCCAGAGTATGTCATGACAGgtctgtctttattactttccgtca-gcatatgtctgaattcagcatgtttaattgacac-aagaaccttttaaaagtcatggctgttttgtcaagcagtgttaaaaaggaccctttttaagcatatgcatgttgatacgatcacattatgtaaatgggtcatatatgtgattgttgtaatag

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|71436828|gb|DR817878.1|DR817878
EST:     TCGTGTTATGGGAACTTATGGATACGCGGCTCCAGAATATGTCATGACTG                         GCCATCTGACAGCACGAAGTGATGTTTATGGCTTTG
genomic: TCGTGTTATGGGAACTTATGGATACGCGGCTCCAGAATATGTCATGACTGgtaagcaagg ... cttgacgcagGCCATCTGACAGCACGAAGTGATGTTTATGGCTTTG
EST: gi|76012348|gb|DT939518.1|DT939518
EST:     TCGTGTTATGGGAACTTATGGATACGCGGCTCCAGAATATGTCATGACTG                         GCCATCTGACAGCACGAAGTGATGTTTATGGCTTTGGAGTCGTGCTTCTAG
genomic: TCGTGTTATGGGAACTTATGGATACGCGGCTCCAGAATATGTCATGACTGgtaagcaagg ... cttgacgcagGCCATCTGACAGCACGAAGTGATGTTTATGGCTTTGGAGTCGTGCTTCTAG