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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCATAAATTCTGTGTTCTATTTCTCATCAACTGTATTCAGAAGTGTGGGGGTGCCCTCTAACCTTGCCAACATATGCATGGGGATTTCTAATCTATCAGgtgcactcaaagctgtctcatacagtggtattatgttcattttgtcacatgacttatttttgtgtgctgtcttacag

Basic information

species Zea mays
transcript GRMZM2G412899_T04
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G412899_T05 (Zea mays), 5'ss of exon 10
lower sequence: LOC_Os02g17500.2 (Oryza sativa), 5'ss of exon 9
GGCATAAATTCTGTGTTCTATTTCTCATCAACTGTATTCAGAAGTGTGGGGGTGCCCTCTAACCTTGCCAACATATGCATGGGGATTTCTAATCTATCAGgtgcactca---aagc----tgtctcatacagtggtattatgttcattttgtcacatgacttatttttgtgtgctgtcttacag------------
||||||||||||||||||||||||||||||||||| |||||||||||||| |||||| |||||||||| |||||||||||||||||  | ||| |||||||||  ||||    |||    | |||  |    || | || |  |  || ||| | ||   |  ||  ||  |  ||| | |               
GGCATAAATTCTGTGTTCTATTTCTCATCAACTGTGTTCAGAAGTGTGGGTGTGCCCCCTAACCTTGCGAACATATGCATGGGGATAGCAAATTTATCAGgtgggctcattggagcatcttctctttttttctgttgttctact-gttctgttatattgatggttgatggattttgtttgatgtgtttgcttccag

upper sequence: GRMZM2G412899_T05 (Zea mays), 5'ss of exon 10
lower sequence: AT1G79820.2 (Arabidopsis thaliana), 5'ss of exon 10
GGCATAAATTCTGTGTTCTATTTCTCATCAACTGTATTCAGAAGTGTGGGGGTGCCCTCTAACCTTGCCAACATATGCATGGGGATTTCTAATCTATCAGgtgcactcaaagctgtctcatacagtggtattatgttcattttgtcacatgac-ttatttttgtgtgctgtcttacag-------------------------
|| |||||| ||||||||||||||||||||||||| ||||  |  |  || || || ||   |  ||| ||||||||  | ||  |||  || || | ||||  | | |||  || ||  | |      ||| |  | ||    | | | | | | || ||  ||    |    | |                          
GGGATAAATGCTGTGTTCTATTTCTCATCAACTGTCTTCAAGAAAGCTGGTGTACCTTCAGCCTCTGCAAACATATGTGTAGGAGTTTGCAACCTCTTAGgt--attgaaatgtgactttttcttgtacattctact-atggcttgaaaggccatcatattcatgataagctagataagcaagtaggtgaatgcagtcttcct

upper sequence: GRMZM2G412899_T05 (Zea mays), 5'ss of exon 10
lower sequence: Vv09s0002g04380.t01 (Vitis vinifera), 5'ss of exon 9
GGCATAAATTCTGTGTTCTATTTCTCATCAACTGTATTCAGAAGTGTGGGGGTGCCCTCTAACCTTGCCAACATATGCATGGGGATTTCTAATCTATCAGgtg-----cactcaaagctgtctcatacagt--ggtattatgttcattttgtcacatgacttatttttgtgtgctgtcttacag----------
||||||||| |||||||||||||||| |||||||| |||| | | |  || || ||  |  ||||||| || || ||  | || ||| | ||| ||||||||      |||| |   | ||  || | |     || ||   |||      |   || |   |||| | |    |  | |  |           
GGCATAAATGCTGTGTTCTATTTCTCTTCAACTGTCTTCAAAGGAGCTGGAGTACCTCCAGACCTTGCAAATATGTGTGTTGGAATTGCAAATTTATCAGgtaaagatcactgacttcagttgcaaatatctcagttttgcattccaaaattatgattagccatttctttactgtaccctttaaacttctttag

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|110961485|gb|EE181537.1|EE181537
EST:     CCTTGCCAACATATGCATGGGGATTTCTAATCTATCAG                         GATCAATTGTAGCAATGCTTCTAATGGACAAGCTAGGTAGAAAAGTGCTTC
genomic: CCTTGCCAACATATGCATGGGGATTTCTAATCTATCAGgtgcactcaa ... tgtcttacagGATCAATTGTAGCAATGCTTCTAATGGACAAGCTAGGTAGAAAAGTGCTTC
EST: gi|78110186|gb|DV528601.1|DV528601
EST:     GGGGA-TTCTAATCTATCAG                         GATCAATGGTAGCAATGCTTCTAATGGACAAGCTAGGTAGAAAAGTGCTTC
genomic: GGGGATTTCTAATCTATCAGgtgcactcaa ... tgtcttacagGATCAATTGTAGCAATGCTTCTAATGGACAAGCTAGGTAGAAAAGTGCTTC
EST: gi|148974491|gb|EE025274.2|EE025274
EST:     ATGCATGGGGATTTCTAATCTATCAG                         GATCAATTGTAGCAATGCTTCTAATGGACAAGCTAGGTAGAAAAGTGCTTC
genomic: ATGCATGGGGATTTCTAATCTATCAGgtgcactcaa ... tgtcttacagGATCAATTGTAGCAATGCTTCTAATGGACAAGCTAGGTAGAAAAGTGCTTC
EST: gi|71766867|gb|DR964804.1|DR964804
EST:     GGTGCCCTCTAACCTTGCCAACATATGCATGGGGATTTCTAATCTATCAG                         GATCAATTGTAGCAATGCTTCTAATGGACAAGCTAGGTAGAAAAGTGCTTC
genomic: GGTGCCCTCTAACCTTGCCAACATATGCATGGGGATTTCTAATCTATCAGgtgcactcaa ... tgtcttacagGATCAATTGTAGCAATGCTTCTAATGGACAAGCTAGGTAGAAAAGTGCTTC