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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCTGAGATGCTGGTAAACCTGCAGGTGCCCTGGGTCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaaccttttaaactcaagttgctgttgatttattttagctgacatgatctgatttatcttctctattgacaactcacattcctgtgttattttgct...

Basic information

species Zea mays
transcript GRMZM2G146206_T05
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G146206_T04 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os01g62420.2 (Oryza sativa), 5'ss of exon 4
TGCTGAGATGCTGGTAAACCTGCAGGTGCCCTGGGTCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaaccttttaaact--caagttgctgttgatttattttagctgacatgatctgatttatcttctctattgacaactcacattcctgtgttattttgct
||| |||||| |||| |||||||||||||| ||||| ||| ||||||| |||||||| ||||| ||| |||| ||||| |||||||||||  | || || | |  | ||   |    ||||| ||||   || || | | |     | ||    |   | || ||     |   |         |  
TGCCGAGATGTTGGTGAACCTGCAGGTGCCTTGGGTGATTCTGGGACACTCTGAGCGGAGAGCGCTGATGGGCGAATCAAGTGATgtgagttctttctacattgtctagaaacataggattttttttca-tgtca-gctttatagcaactagaatgcgggcagctactggtttagcaaggccaggaa
















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|34391231|gb|CF384459.1|CF384459
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGCCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|149095398|gb|EE181040.2|EE181040
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|37361179|gb|CF602468.1|CF602468
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|16919933|gb|BM074427.1|BM074427
EST:     TGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|150037302|gb|DY843516.1|DY843516
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGTTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|61118911|gb|DN559872.1|DN559872
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|6021382|gb|AW066310.1|AW066310
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|211332034|gb|FL380493.1|FL380493
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|76928137|gb|DV171503.1|DV171503
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|24767602|gb|CA402746.1|CA402746
EST:     AGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: AGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|38568995|gb|CF974880.1|CF974880
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|74242319|gb|DT650233.1|DT650233
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|149097485|gb|EE183357.2|EE183357
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|71330644|gb|DR802095.1|DR802095
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAC                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|148995363|gb|EE034577.2|EE034577
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|31351356|gb|CD435713.1|CD435713
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|32915342|gb|CF020154.1|CF020154
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|37361339|gb|CF602628.1|CF602628
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|211504304|gb|FL391671.1|FL391671
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|31354853|gb|CD439210.1|CD439210
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|32851161|gb|CD990842.1|CD990842
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|31352539|gb|CD436896.1|CD436896
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|211405784|gb|FL400096.1|FL400096
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|38229553|gb|CF919866.1|CF919866
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|211387019|gb|FL373417.1|FL373417
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|110517584|gb|EE022171.1|EE022171
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|71757929|gb|DR955866.1|DR955866
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|28566674|gb|CB278322.1|CB278322
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|28576049|gb|CB281941.1|CB281941
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|32909130|gb|CF013942.1|CF013942
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|71436570|gb|DR817620.1|DR817620
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|211247588|gb|FL403551.1|FL403551
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|33770896|gb|CF273190.1|CF273190
EST:     TCATTTTGGGACATTCTGAGCGCANAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|211416108|gb|FL411159.1|FL411159
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|30160504|gb|CB924233.1|CB924233
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|67015285|gb|CO444034.1|CO444034
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|149097486|gb|EE183358.2|EE183358
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|71330645|gb|DR802096.1|DR802096
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAC                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
EST: gi|149005099|gb|EE039628.2|EE039628
EST:     TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGAT                         TTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT
genomic: TCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaacct ... ttcatggcagTTTGTTGCTGATAAAGTTGCATATGCACTCACTCAAGGTCTCAAGGTAATT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGCTGAGATGCTGGTAAACCTGCAGGTGCCCTGGGTCATTTTGGGACATTCTGAGCGCAGAGCTCTGTTGGGTGAATCCAGTGATgtgagaaccttttaaactcaagttgctgttgatttattttagctgacatgatctgatttatcttctctattgacaactcacattcctgtgttattttgct

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT