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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCAATTGACCTAATCGTTCAGCATATTCGGACTAAACTTGGACAACATGATCTTCGTAAAATACACCCTAATCTGTATGTAATTCAGACTACTTATCAGgtacctaatgtaaacattcatttttgttttttatagttctgcttgctgtttgatgtccctgtagtttgtatgtactccattctaaattgtaagctgtttt...

Basic information

species Zea mays
transcript GRMZM2G169462_T01
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G169462_T01 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os11g16370.1 (Oryza sativa), 5'ss of exon 8
GGCAATTGACCTAATCGTTCAGCATATTCGGACTAAACTTGGACAACATGATCTTCGTAAAATACACCCTAATCTGTATGTAATTCAGACTACTTATCAGgtacctaatgtaaacatt---------catttttgttttttatagtt----ctgcttgctgtttgatgtccctgtagt-ttgtatgtactccattctaaattgtaagctgtttt-----------------------------------------
 || |||||| ||||||||||||||||||| ||||| ||||| |||||||||||  ||||| ||||||| ||| ||||||| |||||||||||||||||||||||| |||||| |||          || | || | || ||||        ||  ||   ||||||   |   || | ||| ||||| |     ||   |    |  | | |                                          
TGCGATTGACTTAATCGTTCAGCATATTCGCACTAAGCTTGGTCAACATGATCTCTGTAAAGTACACCCCAATTTGTATGTCATTCAGACTACTTATCAGgtacctgatgtaaccataaatgttctgcagtcttttcttatataagaacaattgtctgtcttttgatagtctcataatattgaatgtaatatgcactttttcaggatttttgtaacatatataaatattgacattgcaatgctgctttctttcag

upper sequence: GRMZM2G169462_T01 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os02g17320.1 (Oryza sativa), 5'ss of exon 8
GGCAATTGACCTAATCGTTCAGCATATTCGGACTAAACTTGGACAACATGATCTTCGTAAAATACACCCTAATCTGTATGTAATTCAGACTACTTATCAGgtacctaatgtaaacattcattt-------ttgttttttatagttctgcttgctgtttgatgtccctgtagt-ttgtatgt-actccattctaaattgtaagctgtttt------------------------------------------
 ||||||||| |||| |||||||||||||| ||||| ||||| |||||||||||  ||||| ||||||| ||| ||||||| |||||||||||||||||||||| | |||| | |||  || |       || ||| |||||   | | ||| | ||||||   |   || | ||| |||| | | || |   | || |    | || |                                          
TGCAATTGACTTAATAGTTCAGCATATTCGTACTAAGCTTGGTCAACATGATCTCTGTAAAGTACACCCCAATTTGTATGTCATTCAGACTACTTATCAGgtacttcatgtgaccataaatgtgctgcagttttttcttataaaaccgattgttttttgataatctcataatattgaatgttaatgcaatt--atttctggatttttgtagcgtatataaatattagcatttcaattcttctttctttcag

upper sequence: GRMZM2G169462_T01 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA18G08180.1 (Glycine max), 5'ss of exon 8
GGCAATTGACCTAATCGTTCAGCATATTCGGACTAAACTTGGACAACATGATCTTCGTAAAATACACCCTAATCTGTATGTAATTCAGACTACTTATCAGgtacctaatgtaaacattcatttttgttttttatagttctgcttgctgtttgatgtccctgtagtttgtatgtactccattctaaattgtaagctgtttt--------
 || |||||  | || || ||||||||||| || || ||||| || ||||| ||  |||||||| | |||||| ||||||| |||||| | |||| |||||||||   || |   ||| ||     ||||  ||  |    ||      |  |      ||   ||   ||  |    |  | |  |||  |  || |          
-GCCATTGATTTGATTGTACAGCATATTCGCACAAAGCTTGGTCAGCATGACCTGTGTAAAATATATCCTAATTTGTATGTCATTCAGTCAACTTTTCAGGtaccc--tgca---atttatggaccttttcaattatctcactgagaactccaaacttttgattttgtcataaaagttaagccatcttgataattgctactatgcaga

upper sequence: GRMZM2G169462_T01 (Zea mays), 5'ss of exon 7
lower sequence: Vv19s0015g01730.t01 (Vitis vinifera), 5'ss of exon 8
GGCAATTGACCTAATCGTTCAGCATATTCGGACTAAACTTGGACAACATGATCTTCGTAAAATACACCCTAATCTGTATGTAATTCAGACTACTTATCAGgtacctaatgtaaacattcatttttgttttttatagttctgcttgctgtttgatgtccctgta-gtttgtatgtactcca-ttctaaattgtaagctgtttt-----------------------------------------------------------------------------------------------------
 || |||||  | || || || |||||||| || ||||||||||||||||||||| |||||||| | |||||||| ||||| |||||  | |||| |||||||  |     |    ||| | |||| | ||  || ||    | | ||| || || |  |||  ||  || |||  |  | ||| |||||  | |   || |                                                                                                     
AGCCATTGATTTGATTGTGCAACATATTCGTACAAAACTTGGACAACATGATCTTTGTAAAATATATCCTAATCTTTATGTCATTCAATCAACTTTTCAGgtatat----cagctcttcctatttgctattattatttactgtgggtgtgtg-tgcctgtgtgtgtgcgtgtgtttttaaattccaaatttcatgtcattgtaaatgtaaggtcacatgatcttgtggattcgatattcagttttatttgcctattgaagttccaaatttcatatgattgaagctttatttgatttgatccag

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|94473336|gb|EB702294.1|EB702294
EST:     ATCTTCGTAAAATACACCCTAATCTGTATGTAATTCAGACTACTTATCAG                         ATACGAGGCATGCACACAATAATAAGGGATGCTGCCACAGCAACACATGAT
genomic: ATCTTCGTAAAATACACCCTAATCTGTATGTAATTCAGACTACTTATCAGgtacctaatg ... tttgtttcagATACGAGGCATGCACACAATAATAAGGGATGCTGCCACAGCAACACATGAT
EST: gi|5915469|gb|AW053110.1|AW053110
EST:     ATCTTCGTAAAATACACCCTAATCTGTATGTAATTCAGACTACTTATCAG                         ATACGAGGCATGCACACAATAATAAGGGATGCTGCCACAGCAACACATGAT
genomic: ATCTTCGTAAAATACACCCTAATCTGTATGTAATTCAGACTACTTATCAGgtacctaatg ... tttgtttcagATACGAGGCATGCACACAATAATAAGGGATGCTGCCACAGCAACACATGAT
EST: gi|24765651|gb|CA400810.1|CA400810
EST:     ATCTTCGTAAAATACACCCTAATCTGTATGTAATTCAGACTACTTATCAG                         ATACGAGGCATGCACACAATAATAAGGGATGCTGCCACAGCAACACATGAT
genomic: ATCTTCGTAAAATACACCCTAATCTGTATGTAATTCAGACTACTTATCAGgtacctaatg ... tttgtttcagATACGAGGCATGCACACAATAATAAGGGATGCTGCCACAGCAACACATGAT