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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taggcagctactgttttgaaacaacaaatttgtggttgcaatgttcactagtgctttgaggtcaatcatttccttgcttacatttgtgattttttttcagGCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATTGTAATTGATGAGGTTGAACTACAGAGACATCAACAGCTTGAGAAATTGT

Basic information

species Zea mays
transcript GRMZM2G179459_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G179459_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os07g32460.1 (Oryza sativa), 3'ss of exon 1
----taggcagctac-tgttttgaaacaacaaatttgtggttgcaatgttcactagtgctttgaggtcaatcatttccttgcttacatttgtgattttttttcagGCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATTGTAATTGATGAGGTTGAACTACAGAGACATCAACAGCTTGAGAAATTGT
    ||     |||  | ||||        || | | || | |   |            ||   ||||||    ||| |||||||||| |    ||   ||||||||||| |||||||| ||||||||||| |||||||| |  |||||  |  ||||||||||||| |||||| ||||||||||||||||||||||||||||||
tctgtaaatgactaaatattttcttcttggaagtgtctgctagtgcttcatgtgctatattcatggtcaagt-cttctttgcttacatgt----ttacatttcagGCTGTGATAAAGCAGTTCAGTACTACGGGCTATGAACATTCAGACGCTGTTGTAATTGATGAAGTTGAATTACAGAGACATCAACAGCTTGAGAAATTGT
















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|211127070|gb|FL125800.1|FL125800
EST:     TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAG                         GCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT
genomic: TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAGgttcctccgg ... tttttttcagGCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT
EST: gi|149001142|gb|EE038404.2|EE038404
EST:     TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAG                         GCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT
genomic: TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAGgttcctccgg ... tttttttcagGCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT
EST: gi|149088736|gb|EE177860.2|EE177860
EST:     TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAG                         GCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT
genomic: TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAGgttcctccgg ... tttttttcagGCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT
EST: gi|149032717|gb|EE154943.2|EE154943
EST:     TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAG                         GCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT
genomic: TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAGgttcctccgg ... tttttttcagGCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT
EST: gi|148996112|gb|EE035378.2|EE035378
EST:     TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAG                         GCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT
genomic: TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAGgttcctccgg ... tttttttcagGCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT
EST: gi|211128000|gb|FL125817.1|FL125817
EST:     TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAG                         GCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT
genomic: TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAGgttcctccgg ... tttttttcagGCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT
EST: gi|88757167|gb|DY541308.1|DY541308
EST:     TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAG                         GCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT
genomic: TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAGgttcctccgg ... tttttttcagGCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT
EST: gi|149013869|gb|EE043354.2|EE043354
EST:     TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAG                         GCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT
genomic: TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAGgttcctccgg ... tttttttcagGCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT
EST: gi|93014497|gb|EB640017.1|EB640017
EST:     TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAG                         GCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT
genomic: TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAGgttcctccgg ... tttttttcagGCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT
EST: gi|211127986|gb|FL125803.1|FL125803
EST:     TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAG                         GCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT
genomic: TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAGgttcctccgg ... tttttttcagGCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT
EST: gi|149085767|gb|EE175287.2|EE175287
EST:     TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAG                         GCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT
genomic: TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAGgttcctccgg ... tttttttcagGCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT
EST: gi|101389748|gb|EB816808.1|EB816808
EST:     TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAG                         GCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT
genomic: TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAGgttcctccgg ... tttttttcagGCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT
EST: gi|211127997|gb|FL125814.1|FL125814
EST:     TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAG                         GCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT
genomic: TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAGgttcctccgg ... tttttttcagGCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT
EST: gi|149086994|gb|EE176539.2|EE176539
EST:     TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAG                         GCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT
genomic: TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAGgttcctccgg ... tttttttcagGCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT
EST: gi|148983017|gb|EE028919.2|EE028919
EST:     TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAG                         GCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT
genomic: TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAGgttcctccgg ... tttttttcagGCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT
EST: gi|211127992|gb|FL125809.1|FL125809
EST:     TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAG                         GCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT
genomic: TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAGgttcctccgg ... tttttttcagGCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT
EST: gi|21843563|gb|BQ704144.1|BQ704144
EST:     TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAG                         GCTGTTATAAAGCAGTTCAGTACTACTGGCTATGAGCGATCAGATTCCATT
genomic: TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAGgttcctccgg ... tttttttcagGCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT
EST: gi|211127995|gb|FL125812.1|FL125812
EST:     TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAG                         GCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT
genomic: TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAGgttcctccgg ... tttttttcagGCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT
EST: gi|148951274|gb|EC896976.2|EC896976
EST:     TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAG                         GCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT
genomic: TGAGGAAGCAGGCGAGCAAGTTCAAGGAGCAGGTCGCCAAGCAGCAGCAGgttcctccgg ... tttttttcagGCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cactagtgctttgaggtcaatcatttccttgcttacatttgtgattttttttcagGCTGTTATAAAGCAATTCAGTACTACTGGCTATGAGCGGTCAGATTCCATTGTAATTGATGAGGTTGAACTACAGAGACATCAACAGCTTGAGAAATTGT
                             tgcttac  putative branch site (score: 2)
                                            ttttttttc  putative PPT
                                    atttgtgatttttttt  TA-rich tract