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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAGgcaagtgcatatgctcctaactcctaggcaatcttaatagcgtttctcatcattatattgcttctcttactgctggcacgctgtgtcttgtag

Basic information

species Zea mays
transcript GRMZM2G096962_T01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G096962_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os02g57670.1 (Oryza sativa), 5'ss of exon 5
TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAGgca----------agtgcat--atgctc-ctaactcctaggcaatcttaatagcgtttctcatcattatattgcttctcttactgctggcacgctgtgtcttgtag
 ||||| ||||| ||| |||||||||| ||||||||||||||||||||| |          ||||||   |   || ||| ||  || | ||   |      | |     |  |  | ||||||  ||||| |     |  || | || |||||
CGTCACAGCACAAGATCTTGTTGACATCATAAAGTCACAACTTAATAGgtatgcccttctaagtgcactgacaatcactaccttttaaggaaggattgcgatgctctatttgctgctgttgctttgcttaccgg----aaactatttcatgtag
















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|13490830|gb|BG517594.1|BG517594
EST:     TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAG                         GGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAAT
genomic: TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAGgcaagtgcat ... tgtcttgtagGGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAAT
EST: gi|211087730|gb|FL054352.1|FL054352
EST:     TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAG                         GGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTTGAA-TCGGAG
genomic: TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAGgcaagtgcat ... tgtcttgtagGGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGT-GAAATCGGAG
EST: gi|14645994|gb|BI180183.1|BI180183
EST:     TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAG                         GGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
genomic: TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAGgcaagtgcat ... tgtcttgtagGGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
EST: gi|211087722|gb|FL054344.1|FL054344
EST:     TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAG                         GGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
genomic: TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAGgcaagtgcat ... tgtcttgtagGGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
EST: gi|211518614|gb|FL054337.1|FL054337
EST:     TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAG                         GGATGTCGACAAGAAGCTGG
genomic: TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAGgcaagtgcat ... tgtcttgtagGGATGTCGACAAGAAGCTGG
EST: gi|32830089|gb|CD969767.1|CD969767
EST:     TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAG                         GGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
genomic: TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAGgcaagtgcat ... tgtcttgtagGGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
EST: gi|32860092|gb|CD999773.1|CD999773
EST:     TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAG                         GGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
genomic: TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAGgcaagtgcat ... tgtcttgtagGGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
EST: gi|33099864|gb|CF059824.1|CF059824
EST:     TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAG                         GGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
genomic: TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAGgcaagtgcat ... tgtcttgtagGGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
EST: gi|32829981|gb|CD969659.1|CD969659
EST:     TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAG                         GGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
genomic: TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAGgcaagtgcat ... tgtcttgtagGGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
EST: gi|32829709|gb|CD969387.1|CD969387
EST:     TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAG                         GGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
genomic: TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAGgcaagtgcat ... tgtcttgtagGGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
EST: gi|148974517|gb|EE025302.2|EE025302
EST:     TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAG                         GGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
genomic: TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAGgcaagtgcat ... tgtcttgtagGGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
EST: gi|211087721|gb|FL054343.1|FL054343
EST:     TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAG                         GGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
genomic: TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAGgcaagtgcat ... tgtcttgtagGGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
EST: gi|31355725|gb|CD440082.1|CD440082
EST:     TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAG                         GGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
genomic: TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAGgcaagtgcat ... tgtcttgtagGGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
EST: gi|16379884|gb|BI993198.1|BI993198
EST:     TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAG                         GGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
genomic: TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAGgcaagtgcat ... tgtcttgtagGGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
EST: gi|15208882|gb|BI430766.1|BI430766
EST:     TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAG                         GGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
genomic: TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAGgcaagtgcat ... tgtcttgtagGGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
EST: gi|149010029|gb|EE041834.2|EE041834
EST:     TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAG                         GGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
genomic: TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAGgcaagtgcat ... tgtcttgtagGGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
EST: gi|16926981|gb|BM080049.1|BM080049
EST:     TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAG                         GGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
genomic: TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAGgcaagtgcat ... tgtcttgtagGGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
EST: gi|83279377|gb|DV943385.1|DV943385
EST:     TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAG                         GGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
genomic: TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAGgcaagtgcat ... tgtcttgtagGGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
EST: gi|32858543|gb|CD998224.1|CD998224
EST:     TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAG                         GGATGTCGACAAGAAGCT
genomic: TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAGgcaagtgcat ... tgtcttgtagGGATGTCGACAAGAAGCT
EST: gi|148985808|gb|EE029766.2|EE029766
EST:     TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAG                         GGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
genomic: TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAGgcaagtgcat ... tgtcttgtagGGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
EST: gi|32848919|gb|CD988600.1|CD988600
EST:     TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAG                         GGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
genomic: TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAGgcaagtgcat ... tgtcttgtagGGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
EST: gi|13516046|gb|BG518322.1|BG518322
EST:     TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAG                         GGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGCGAAATCGGAGA
genomic: TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAGgcaagtgcat ... tgtcttgtagGGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
EST: gi|32828996|gb|CD968674.1|CD968674
EST:     TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAG                         GGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
genomic: TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAGgcaagtgcat ... tgtcttgtagGGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
EST: gi|32829797|gb|CD969475.1|CD969475
EST:     TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAG                         GGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
genomic: TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAGgcaagtgcat ... tgtcttgtagGGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
EST: gi|16918822|gb|BM073911.1|BM073911
EST:     TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAG                         GGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
genomic: TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAGgcaagtgcat ... tgtcttgtagGGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
EST: gi|15053619|gb|BI359164.1|BI359164
EST:     TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAG                         GGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGGGAAATCGGAGA
genomic: TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAGgcaagtgcat ... tgtcttgtagGGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
EST: gi|148967374|gb|EE018593.2|EE018593
EST:     TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAG                         GGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
genomic: TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAGgcaagtgcat ... tgtcttgtagGGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
EST: gi|32829763|gb|CD969441.1|CD969441
EST:     TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAG                         GGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
genomic: TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAGgcaagtgcat ... tgtcttgtagGGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
EST: gi|32849657|gb|CD989338.1|CD989338
EST:     TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAG                         GGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
genomic: TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAGgcaagtgcat ... tgtcttgtagGGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
EST: gi|13315933|gb|BG410281.1|BG410281
EST:     TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAG                         GGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
genomic: TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAGgcaagtgcat ... tgtcttgtagGGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
EST: gi|211518615|gb|FL054338.1|FL054338
EST:     TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAG                         GGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA
genomic: TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAGgcaagtgcat ... tgtcttgtagGGATGTCGACAAGAAGCTGGTGACGGTTCCAGAAATCCGTGAAATCGGAGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGTCACGGCACAGGATGTTGTTGACATAATAAAGTCACAACTTAATAGgcaagtgcatatgctcctaactcctaggcaatcttaatagcgtttctcatcattatattgcttctcttactgctggcacgctgtgtcttgtag

- - - - -  AGGATG