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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCGCCTCTCATCATCGGCTGCGACGTCAGGCACATGTCGCGGGAGACGTACGCCATCCTGGCCAACAAGGAGGTGATCGCCGTCAACCAAGgtgagagcgcccggctgcgttcagcgcccgcgtgtccagttttttcactgaccggaggcgatgcgttgttcctgtgttgtgtgttgggcgtgcgtcgcgtcgcgtgcag

Basic information

species Zea mays
transcript GRMZM2G095126_T02
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G095126_T02 (Zea mays), 5'ss of exon 10
lower sequence: LOC_Os10g35070.1 (Oryza sativa), 5'ss of exon 12
GCGCCTCTCATCATCGGCTGCGACGTCAGGCACATGTCGCGGGAGACGTACGCCATCCTGGCCAACAAGGAGGTGATCGCCGTCAACCAAGgtgagagcgcccggctgcgttcagcgcccgcgtgtccagttttttcactgaccggaggcgatgcgttgttcctgtgttgtgtgttgggcgtgcgtcgcgtcgcgtgcag
|| ||||| |||||||| |||||||| ||||||||||||| ||||||||||| ||||||||||||||||||||| ||||||||||||||||||       | |  || | | | ||  ||||| |         ||||  ||        |  || ||||     || | | | |||||  | |                
GCTCCTCTGATCATCGGGTGCGACGTGAGGCACATGTCGCAGGAGACGTACGACATCCTGGCCAACAAGGAGGTCATCGCCGTCAACCAAGgta------ctctact-cttcctgctgccgcgagcttcaggaattcagagagttttcatggcgc-ttgtcggattgatcttt-ttgggaattcag--------------
















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|110489816|gb|EE013039.1|EE013039
EST:     GCCAACAAGGAGGTGATTGCCGTCAACCAAG                         ATCCGCTCGGCGTTCAGGGGAAGAAGGTGCGGATGGAGGGGAGCAGCGAAA
genomic: GCCAACAAGGAGGTGATCGCCGTCAACCAAGgtgagagcgc ... tcgcgtgcagATCCGCTCGGCGTGCAGGGGAAGAAGGTGCGGATGGAGGGGAGCAGCGAGA
EST: gi|71323535|gb|DR798428.1|DR798428
EST:     GGAGACGTACGCCATCCTGGCCAACAAGGAGGTGATCGCCGTCAACCAAG                         ATCCGCTCGGCGTGCAGGGGAAGAAGGTGCGGATGGAGGGGAGCAGCGAGA
genomic: GGAGACGTACGCCATCCTGGCCAACAAGGAGGTGATCGCCGTCAACCAAGgtgagagcgc ... tcgcgtgcagATCCGCTCGGCGTGCAGGGGAAGAAGGTGCGGATGGAGGGGAGCAGCGAGA
EST: gi|88753305|gb|DY537446.1|DY537446
EST:     GGAGACGTACGCCATCCTGGCCAACAAGGAGGTGATCGCCGTCAACCAAG                         ATCCGCTCGGCGTGCAGGGGAAGAAGGTGCGGATGGAGGGGAGCAGCGAGA
genomic: GGAGACGTACGCCATCCTGGCCAACAAGGAGGTGATCGCCGTCAACCAAGgtgagagcgc ... tcgcgtgcagATCCGCTCGGCGTGCAGGGGAAGAAGGTGCGGATGGAGGGGAGCAGCGAGA
EST: gi|94473544|gb|EB702502.1|EB702502
EST:     GGAGACGTACGCCATCCTGGCCAACAAGGAGGTGATCGCCGTCAACCAAG                         ATCCGCTCGGCGTGCAGGGGAAGAAGGTGCGGATGGAGGGGAGCAGCGAGA
genomic: GGAGACGTACGCCATCCTGGCCAACAAGGAGGTGATCGCCGTCAACCAAGgtgagagcgc ... tcgcgtgcagATCCGCTCGGCGTGCAGGGGAAGAAGGTGCGGATGGAGGGGAGCAGCGAGA
EST: gi|148929477|gb|EC875592.2|EC875592
EST:     GGAGAGGTACGCCATCCTGGCCAACAAGGAGGTGATCGCCGTCAACCAAG                         ATCCGCTCGGCGTGCAGGGGAAGAAGGTGCGGATGGAGGGGAGCAGCGAGA
genomic: GGAGACGTACGCCATCCTGGCCAACAAGGAGGTGATCGCCGTCAACCAAGgtgagagcgc ... tcgcgtgcagATCCGCTCGGCGTGCAGGGGAAGAAGGTGCGGATGGAGGGGAGCAGCGAGA
EST: gi|5740192|gb|AI947882.1|AI947882
EST:     GGAGACGTACGCCATCCTGGCCAACAAGGAGGTGATCCCCGTCAACCAAG                         ATCCGCTCGGCGTGCAGGGGAAGAAGGTGCGGATGGAGGGGAGCAGCGAGA
genomic: GGAGACGTACGCCATCCTGGCCAACAAGGAGGTGATCGCCGTCAACCAAGgtgagagcgc ... tcgcgtgcagATCCGCTCGGCGTGCAGGGGAAGAAGGTGCGGATGGAGGGGAGCAGCGAGA
EST: gi|149080680|gb|EE169738.2|EE169738
EST:     GGAGACGTACGCCATCCTGGCCAACAAGGAGGTGATCGCCGTCAACCAAG                         ATCCGCTCGGCGTGCAGGGGAAGAAGGTGCGGATGGAGGGGAGCAGCGAGA
genomic: GGAGACGTACGCCATCCTGGCCAACAAGGAGGTGATCGCCGTCAACCAAGgtgagagcgc ... tcgcgtgcagATCCGCTCGGCGTGCAGGGGAAGAAGGTGCGGATGGAGGGGAGCAGCGAGA
EST: gi|211321684|gb|FL295978.1|FL295978
EST:     GGAGACGTACGCCATCCTGGCCAACAAGGAGGTGATCGCCGTCAACCAAG                         ATCCGCTCGGCGTGCAGGGGAAGAAGGTGCGGATGGAGGGGAGCAGCGA
genomic: GGAGACGTACGCCATCCTGGCCAACAAGGAGGTGATCGCCGTCAACCAAGgtgagagcgc ... tcgcgtgcagATCCGCTCGGCGTGCAGGGGAAGAAGGTGCGGATGGAGGGGAGCAGCGA
EST: gi|71767715|gb|DR965652.1|DR965652
EST:     GGAGACGTACGCCATCCTGGCCAACAAGGAGGTGATCGCCGTCAACCAAG                         ATCCGCTCGGCGTGCAGGGGAAGAAGGTGCGGATGGAGGGGAGCAGCGAGA
genomic: GGAGACGTACGCCATCCTGGCCAACAAGGAGGTGATCGCCGTCAACCAAGgtgagagcgc ... tcgcgtgcagATCCGCTCGGCGTGCAGGGGAAGAAGGTGCGGATGGAGGGGAGCAGCGAGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCGCCTCTCATCATCGGCTGCGACGTCAGGCACATGTCGCGGGAGACGTACGCCATCCTGGCCAACAAGGAGGTGATCGCCGTCAACCAAGgtgagagcgcccggctgcgttcagcgcccgcgtgtccagttttttcactgaccggaggcgatgcgttgttcctgtgttgtgtgttgggcgtgcgtcgcgtcgcgtgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG