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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTTTTTGGAAAGATCATCTGCGAGGAAGACCGTACCATATCAGgtaggtgatattttctgtcaattatactgtgattaaactgtttctagtgctgttataaaacaatgtgcttggtgatattccag

Basic information

species Zea mays
transcript GRMZM5G846198_T02
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G846198_T02 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os02g44510.1 (Oryza sativa), 5'ss of exon 14
GGTTTTTGGAAAGATCATCTGCGAGGAAGACCGTACCATATCAGgtaggtgatattttctgtcaattatactgtgattaaactgtttctagtgctgttataaaacaat-gtg-cttggtgatattccag
||||| |||||||||||||||||||||||||| ||||| ||||||| ||||  || || ||   ||  ||     ||| |  | ||||| ||  |||  |  ||   |  ||  |||||| ||||||||
GGTTTCTGGAAAGATCATCTGCGAGGAAGACCATACCACATCAGgtgggtgtgatctt-tgcatatggtatgccaattca-ttctttctggttttgtgttgtaattgttatgatttggtgttattccag
















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|32839545|gb|CD979226.1|CD979226
EST:     TACCATATCAG                         TGCGCTTTATGTTGTTGATTTGG-CAAATTTCGGCAAACTGCTTCTGGGGA
genomic: TACCATATCAGgtaggtgata ... gatattccagTGCGCTTTATGTTGTTGATTTGGCCAAATTTCGGCAAACTGCTTCTGGGGA
EST: gi|32841221|gb|CD980902.1|CD980902
EST:     GTACCATATCAG                         TGCGCTTTATGTTGTTGATTTGGCCAAATTTCGGCAAACTGCTTCTGGGGA
genomic: GTACCATATCAGgtaggtgata ... gatattccagTGCGCTTTATGTTGTTGATTTGGCCAAATTTCGGCAAACTGCTTCTGGGGA
EST: gi|116823777|gb|EC867342.1|EC867342
EST:     GGTTTTTGGAAAGATCATCTGCGAGGAAGACCGTACCATATCAG                         TGCGCTTTATGTTGTTGATTTGGCCAAATTTCGGCAAACTGCTCCTGGGGA
genomic: GGTTTTTGGAAAGATCATCTGCGAGGAAGACCGTACCATATCAGgtaggtgata ... gatattccagTGCGCTTTATGTTGTTGATTTGGCCAAATTTCGGCAAACTGCTTCTGGGGA
EST: gi|211517236|gb|FL220133.1|FL220133
EST:     GGAAAGATCATCTGCGAGGAAGACCGTACCATATCAG                         TGCGCTTTATGTTGTTGATTTGGCCAAATTTCGGCAAACTGCTTCTGGGGA
genomic: GGAAAGATCATCTGCGAGGAAGACCGTACCATATCAGgtaggtgata ... gatattccagTGCGCTTTATGTTGTTGATTTGGCCAAATTTCGGCAAACTGCTTCTGGGGA
EST: gi|60395365|gb|DN228234.1|DN228234
EST:     GCGAGGAAGACCGTACCATATCAG                         TGCGCTTTATGTTGTTGATTTGGCCAAATTTCGGCAAACTGCTTCTGGGGA
genomic: GCGAGGAAGACCGTACCATATCAGgtaggtgata ... gatattccagTGCGCTTTATGTTGTTGATTTGGCCAAATTTCGGCAAACTGCTTCTGGGGA
EST: gi|67022576|gb|CO451325.1|CO451325
EST:     GGTTTTTGGAAAGATCATCTGCGAGGAAGACCGTACCATATCAG                         TGCGCCTTATGTTGTTGATTTGGCCAAATTTCGGCAAACTGCTTCTGGGGA
genomic: GGTTTTTGGAAAGATCATCTGCGAGGAAGACCGTACCATATCAGgtaggtgata ... gatattccagTGCGCTTTATGTTGTTGATTTGGCCAAATTTCGGCAAACTGCTTCTGGGGA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTTTTTGGAAAGATCATCTGCGAGGAAGACCGTACCATATCAGgtaggtgatattttctgtcaattatactgtgattaaactgtttctagtgctgttataaaacaatgtgcttggtgatattccag

- - - - -  AGATCA
- - - - - - - - - - - - GGAAGA