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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGCAACAGCTCAAGATATCCGCACCATGATTATTGGTCGGTTGCTTGCTGGAATTGGTATTGGGATCTCATCTGCACTTGTACCCCTTTACATATCTGAGgttgtgatacgatgaaacgacagttgctttgttcaaaacctgatgctgttgtgaaatgctacagttacttctgtctttgttcaatagctactgcatgcattgacgaacatctccaacaaatgaacttgtactttgcag

Basic information

species Zea mays
transcript GRMZM2G098011_T01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G098011_T02 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os01g04190.2 (Oryza sativa), 5'ss of exon 6
CGCAACAGCTCAAGATATCCGCACCATGATTATTGGTCGGTTGCTTGCTGGAATTGGTATTGGGATCTCATCTGCACTTGTACCCCTTTACATATCTGAGgttgtgatacgatgaaacgacagttgctttgttcaaaacctgatgctgttgtgaaatgctacagttacttctgtctttgttcaatagctactgcatgcattgacgaacatctccaacaaatgaacttgtactttgcag
 ||||||||||| ||| | ||||| ||||||||||| || || |||||||| ||||||||||| || || ||||| ||||| |||||||||||||||||||||||||||   ||| |    | |    ||||| |||   |  | | | |   |   ||||       |  ||    ||  ||| | ||     ||  |    |   |  || ||                       
TGCAACAGCTCATGATGTTCGCACAATGATTATTGGCCGATTACTTGCTGGGATTGGTATTGGCATATCTTCTGCTCTTGTGCCCCTTTACATATCTGAGgttgtgata-actgataa---attcaaattgttgaaatgattgttcagctactactggctagg----ttcttgaacatgcccaacaactgagctatttac--gcttgcgcctgcag----------------------

upper sequence: GRMZM2G098011_T02 (Zea mays), 5'ss of exon 6
lower sequence: AT5G16150.3 (Arabidopsis thaliana), 5'ss of exon 5
CGCAACAGCTCAAGATATCCGCACCATGATTATTGGTCGGTTGCTTGCTGGAATTGGTATTGGGATCTCATCTGCACTTGTACCCCTTTACATATCTGAGgttgtgatacgatgaaacgacagttgctttgttcaaaacctgatgctgttgtgaaatgctacagttacttctgtctttgttcaatagctactgcatgcattgacgaacatctccaacaaatgaacttgtactttgcag
 |||||||||||   | | |  || |||||| | || ||  |||| ||||||||||| ||||| |||||||| ||  ||||||| ||||||||||||||||||||   |  |   |    || |   ||||  |         |  |    | | ||| || | ||  || | |    |||   |  ||   || |    ||| |    ||                           
TGCAACAGCTCAGAGTGTGCAGACTATGATTGTGGGACGTCTGCTCGCTGGAATTGGAATTGGAATCTCATCAGCGATTGTACCACTTTACATATCTGAGgttgtttaaatactgattttcattatttttgcac---------ttttagcataagatgttagatttgtttatat----gttatgtctctgaagcgtttgatgatggttgtcag-------------------------

upper sequence: GRMZM2G098011_T02 (Zea mays), 5'ss of exon 6
lower sequence: Vv14s0006g02720.t01 (Vitis vinifera), 5'ss of exon 6
CGCAACAGCTCAAGATATCCGCACCATGATTATTGGTCGGTTGCTTGCTGGAATTGGTATTGGGATCTCATCTGCACTTGTACCCCTTTACATATCTGAGgttgtgatacgatgaaacgacagttgctttgttcaaaacctgatgctgttgtgaaatgctacagttacttctgtctttgttcaatagctactgcatgcattgacgaacatctccaacaaatgaacttgtactttgcag
 || ||||| ||   | | |  || ||||| |||||| |||| |||||||| ||||| ||||| ||||||||||||||||| || ||||||||||||||||| || ||      |     || |    || ||    |    ||  | ||||    |  ||    | | | ||    ||   || |  |  |  |||    |                                    
TGCGACAGCACAGAGTGTGCAGACTATGATAATTGGTAGGTTACTTGCTGGCATTGGAATTGGCATCTCATCTGCACTTGTGCCACTTTACATATCTGAGgtagtaatgtttcaatttttcattattattatt----atgctat-tttttgttcgtttttatgaatgcctttgaaactg--aaacacattttaaatggtcag------------------------------------

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|32808986|gb|CD961220.1|CD961220
EST:     GATCTCATCTGCACTTGGTACCCCTTTACATATCTGAG                         ATATCACCAACTGAAATTCGTGGAACACTTGGTTCCGTTA
genomic: GATCTCATCTGCACTT-GTACCCCTTTACATATCTGAGgttgtgatac ... tactttgcagATATCACCAACTGAAATTCGTGGAACACTTGGTTCCGTTA
EST: gi|13198611|gb|BG354413.1|BG354413
EST:     GAATTGGTATTGGGATCTCATCTGCACTTGTACCCCTTTACATATCTGAG                         ATATCACCAACTGAAATTCGTGGAACACTTGGTTCCGTTAATCAACTTTTT
genomic: GAATTGGTATTGGGATCTCATCTGCACTTGTACCCCTTTACATATCTGAGgttgtgatac ... tactttgcagATATCACCAACTGAAATTCGTGGAACACTTGGTTCCGTTAATCAACTTTTT