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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACCTGATGACATGCCAGCACATATCAAATCATCAATGTTTGGTTGTTCCCTGATgtatgtagactcctttcatcctttccattaacttttgatgtgtccaagttatatttataacacttggtctattgcctcag

Basic information

species Zea mays
transcript GRMZM5G890647_T02
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G890647_T02 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os06g43140.1 (Oryza sativa), 5'ss of exon 5
GACCTGATGACATGCCAGCACATATCAAATCATCAATGTTTGGTTGTTCCCTGATgtatgtagactcctttcatcctttccattaactt-ttgatgtgtccaagttatatttataacacttggtctattgcctcag
| || || ||||||||||||||||| ||||| || |||||||||||| |||||| ||||||   | | ||||       ||  ||| || ||| || ||||     |||||| |||||  |  |  ||||| ||||
GGCCAGACGACATGCCAGCACATATTAAATCGTCGATGTTTGGTTGTGCCCTGACgtatgtgctcccttttcccttgcgcccataatttgttgttgcgtccccaaaatatttgtaacatctttttcattgcatcag

upper sequence: GRMZM5G890647_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA07G34680.2 (Glycine max), 5'ss of exon 5
GACCTGATGACATGCCAGCACATATCAAATCATCAATGTTTGGTTGTTCCCTGATgtatgtagactcctttcatcctttccattaacttttgatgtgtccaagttatatttataacacttggt-ctattgcctcag----------------
| || |||||||||||||| ||||| |||||||| |||||||||||| | || | ||  | |   | ||| |||  ||    || | || | |||     |||||||  | ||   |     | ||     || |                 
GGCCAGATGACATGCCAGCTCATATTAAATCATCGATGTTTGGTTGTACACTCACgtgagcaa--tacttccatttttcagtttgatttatcatgctgaaaagttatggtaatgttatgaactactggcatcttatatttttacttttttag

upper sequence: GRMZM5G890647_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA15G17340.2 (Glycine max), 5'ss of exon 3
GACCTGATGACATGCCAGCACATATCAAATCATCAATGTTTGGTTGTTCCCTGATgtatgtagactcctttcatcctttccattaacttttgatgtgtccaagttatatttataacacttggt-ctattgcctcag
| || ||||||||||| |||||||| ||||| || |||||||||||| | || ||||  ||    |  |   ||   ||   |   |     || | |     | |      | | |  | ||  | ||   | ||
GGCCAGATGACATGCCGGCACATATTAAATCGTCGATGTTTGGTTGTGCACTCATgtgagttatttgttcaaattgatttattatgcgaggaatatattatcatcaatccactgatatattgtgtttttaatttag

upper sequence: GRMZM5G890647_T02 (Zea mays), 5'ss of exon 3
lower sequence: AT1G21065.1 (Arabidopsis thaliana), 5'ss of exon 5
GACCTGATGACATGCCAGCACATATCAAATCATCAATGTTTGGTTGTTCCCTGATgtatg-tagactcctttcatc-ctttccattaacttt---tgatgtgtccaagtt-----atattta--taacacttggtctattgcctcag-------
| ||||||||||||||||| |||||||| |||||||||||||| |||   || | ||  | || | || | | ||  |  |   || || |      || | |   || |     || || |  |||||  || |   |    |  |       
GTCCTGATGACATGCCAGCTCATATCAAGTCATCAATGTTTGGATGTCAACTCACgtgagctacaatcatattataaccgtagtttgacatagcacaatttattttagcttttggatgttcacttaacaagtgtttgttcattttggtctgcag

upper sequence: GRMZM5G890647_T02 (Zea mays), 5'ss of exon 3
lower sequence: Vv18s0122g00190.t01 (Vitis vinifera), 5'ss of exon 5
GACCTGATGACATGCCAGCACATATCAAATCATCAATGTTTGGTTGTTCCCTGATgta----tgtagactcctttcatcctttccattaacttttgatgtgtccaagttatatttataacacttggt--ctattgcctcag-----------------
| || ||||||||||||||||| |||||||| ||||||||||||||    || | |||    | |    | ||||     |||   ||   ||||  | | |      || | ||  |  ||    |  | |||  ||  |                 
GTCCGGATGACATGCCAGCACACATCAAATCTTCAATGTTTGGTTGCAGTCTCACgtaatgatttcattttctttggctttttttttttttttttttttttttgtctataaaatttcattaccaaattaccatttacttggtttttattgttgtgcag

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|211137108|gb|FL444605.1|FL444605
EST:     GATGACATGCCAGCACATATCAAATCATCAATGTTTGGTTGTTCCCTGAT                         GATTCCTATCACCAATGGACGTCTCAACATGGGAACTTGGCAG
genomic: GATGACATGCCAGCACATATCAAATCATCAATGTTTGGTTGTTCCCTGATgtatgtagac ... attgcctcagGATTCCTATCACCAATGGACGTCTCAACATGGGAACTTGGCAG
EST: gi|116824578|gb|EC868212.1|EC868212
EST:     GA-GACATGCCAGCACATATCAAATCATCAATGTTTGGTTGTTCCCTGAT                         GATTCCTATCACCAATGGACGTCTCAACATGGGAACTTGGCAG
genomic: GATGACATGCCAGCACATATCAAATCATCAATGTTTGGTTGTTCCCTGATgtatgtagac ... attgcctcagGATTCCTATCACCAATGGACGTCTCAACATGGGAACTTGGCAG