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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGCGGCGGAGGCGGAGGAGTGCTCGGGTGTGGAGACGCTGATCCCGCCCGACAATCGCATCCCCGCCACCATCATCACCGGCTTCCTCGGCTCTGGCAAGgtccgcgtccgcctgccctaacctcagtgctaccgttggttagggtacgcggtttgggaagtccatgtgttgctagacttacactggaaacgattagcta...

Basic information

species Zea mays
transcript GRMZM2G180418_T03
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G180418_T03 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os02g55630.1 (Oryza sativa), 5'ss of exon 1
CGCGGCGGAGGCGGAGGAGTGCTCGGGTGTGGAGACGCTGATCCCGCCCGACAATCGCATCCCCGCCACCATCATCACCGGCTTCCTCGGCTCTGGCAAGgtccgcgtccgc--ctgccctaacctcagtgctaccgttggttaggg---tacgcggtttgggaa-gtccatgtgttgctagact-tacactggaaacgattagcta
| ||| ||||| ||||||| |  | ||||  |||  | |||||||||||||||| |||||||||||||||||||||||||||||||||||||| || |||||| |  |            |||      | |  |  | ||| |  |   | || | ||| | |  ||  |  || |  || |||   | |    |  ||       
CACGGAGGAGGAGGAGGAGGGAGCAGGTGCTGAGGTGATGATCCCGCCCGACAACCGCATCCCCGCCACCATCATCACCGGCTTCCTCGGCTCCGGGAAGgtcaggcttaaaaataataataattaagattcggctttaggtgaaaggtatccgtgattttgcactgtagagatgcttgtatactactctcccacagtga-------

upper sequence: GRMZM2G180418_T03 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA20G38450.1 (Glycine max), 5'ss of exon 1
CGCGGCGGAGGCGGAGGAGTGCTCGGGTGTGGAGACGCTGATCCCGCCCGACAATCGCATCCCCGCCACCATCATCACCGGCTTCCTCGGCTCTGGCAAGgtccgcgtccgcctgccctaacctcagtgctaccgttggttagggtacgcggtttgggaagtcc-atgtgttgctagacttacactggaaacgattagcta-----
 ||| ||         |||   || |  ||    || || ||||| ||||||||||| || || || ||||||||||||||||| |||||||| ||||||||   | |     |  ||   |||   |    |  |     |   | ||| || |  ||| ||| |  || |  |    || | ||  ||  ||||| ||      
TGCGCCGCCTCAATCCGAGGATTCCGACGTTTCCACCCTCATCCCTCCCGACAATCGTATTCCGGCAACCATCATCACCGGCTTTCTCGGCTCCGGCAAGgtatccatttctatttcc---cctttttttctcattcaaagataattcgcagtgtctgaactccgaaatggttttcatgttgc-cttcaattgattatctgaccag

upper sequence: GRMZM2G180418_T03 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA10G43740.1 (Glycine max), 5'ss of exon 1
CGCGGCGGAGGCGGAGGAGTGCTCGGGTGTGGAGACGCTGATCCCGCCCGACAATCGCATCCCCGCCACCATCATCACCGGCTTCCTCGGCTCTGGCAAGgtccgcgtccgcctgccctaacctcagtgctaccgttggttagggtacgcggtttgggaagtccatgtgttgctagacttacactggaaacgattagcta-----
 ||  |          |||   || |  ||    ||  | || || |||||||||||||| || || ||||||||||||||||| |||||||| ||||||||   | |     |  ||   |||   |    |  |     |  || ||||| |   |||    |||| ||  | |  || ||||| ||  ||||| ||      
TGCACCTCCTCAATCCGAGGATTCCGACGTTTCCACCGTCATTCCTCCCGACAATCGCATACCGGCAACCATCATCACCGGCTTTCTCGGCTCCGGCAAGgtatccatttctatttcc---cctttttttctcattcaaagaaagttcgcggct---gaa----atgtttttttcg--ttgcactg-aattgattaactgcccag

upper sequence: GRMZM2G180418_T03 (Zea mays), 5'ss of exon 6
lower sequence: AT1G15730.1 (Arabidopsis thaliana), 5'ss of exon 1
CGCGGCGGAGGCGGAGGAGTGCTCGGGTGTGGAGACGCTGATCCCGCCCGACAATCGCATCCCCGCCACCATCATCACCGGCTTCCTCGGCTCTGGCAAGgtccgcgtccgcctg---ccctaacctcagtgctaccgttgg--ttagggtacgcggtttgggaagtccatgtgttgctagacttacactggaaacgattagcta
||  |  || |  || ||   ||  | ||| |  |    |||   |||||||||||| || || ||||| || |||||||| ||||| |||||||| |||||  |  |   |  |    | | |         | | | |    || | |    | | ||  ||| | ||   |    | |  ||   |||  |  |  |||   
CGTTGTAGATGATGAAGATATCTTCGATGTTGCCAGTGAGATTTTGCCCGACAATCGAATTCCGGCCACTATAATCACCGGGTTCCTGGGCTCTGGTAAGgtgaggctaatctagggttcatgattcggaaattcctgctcaattttgagcgatcagattctgaatttcactgg--aattgtttttttctg--agtgtatag---

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|74243279|gb|DT651193.1|DT651193
EST:     ACAATCGCATCCCCGCCACCATCATCACCGGCTTCCTCGGCTCTGGCAAG                         ACAACTTTACTGAATCACATCTTGACTGCCCACCATGGAAAGCGAATTGCT
genomic: ACAATCGCATCCCCGCCACCATCATCACCGGCTTCCTCGGCTCTGGCAAGgtccgcgtcc ... ttcttcgcagACAACTTTACTGAATCACATCTTGACTGCCCACCATGGAAAGCGAATTGCT