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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtgcttgccatctaatttttgtgattgcgttatgcttttagtaagtttggtctattaacttatctgatatgtgtttcttttccccccatgttattatagCGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAGACTTGATTGTAGGATCCTGCTTACAG

Basic information

species Zea mays
transcript GRMZM2G052546_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G052546_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os03g01750.2 (Oryza sativa), 3'ss of exon 4
tgtgcttgccatctaatttttgtgattgcgttatgcttttagtaagtt-tggtctattaa----cttatctgatatgtgtttcttttccccccatgttatta-tagCGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAGACTTGATTGTAGGATCCTGCTTACAG
     ||     |    || |   ||| |  || ||||||| |   ||   |||||| |     |    |||| ||   |||| |||    | |  | |||  ||| |||||| ||||||||||| || || |||||||||||||||||||||||||||||||| || || ||||||||||||
----tttatggacaggcttgtactatt-cactaagcttttactggattactgtctatcattgatcactcctgagat-catttcctttttttctaaatcatttctagTGTTGACGTATAGACATGAGCTTGGAATGAACTACAATTTCATACGCCCAGACTTGATCGTGGGCTCCTGCTTACAG

upper sequence: GRMZM2G052546_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA20G33190.1 (Glycine max), 3'ss of exon 4
tgtgcttgccatctaatttttg-tgattgcgttatgcttttagtaagtttggtctattaacttatctgatatgtgtttcttttccccccatgttatt-atagCGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAGACTTGATTGTAGGATCCTGCTTACAG
  |  ||   ||  | |    | | | |   ||   | |    |   |||| ||| || | | ||      |||    | ||||   | | || ||| | ||  ||||| ||||| |||||| | || |||||||| |||||||| || |||||||||||||| ||||| ||| |||||
-atagtttggattaactaaaggatcactcaattgctcatcctattcttttgttct-ttgaataattaatgttgttaaccctttctaacgaagtaattcacagTTTTGACTTATAGGCATGAATTAGGAATGAACTATAATTTCATCCGTCCAGACTTGATTGTGGGATCATGCCTACAG

upper sequence: GRMZM2G052546_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA10G34370.1 (Glycine max), 3'ss of exon 4
tgtgcttgccatctaatttttg-tgattgcgttatgcttttagtaagtttggtctattaacttatctgatatgtgtttcttttccccccatgttatt-atagCGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAGACTTGATTGTAGGATCCTGCTTACAG
  |  ||   ||  | |    | | | |   ||   | |    |   |||| ||| || | | ||      |||    | ||||   | | ||  || | ||  ||||| ||||| |||||| | || |||||||| |||||||| || |||||||||||||| ||||| ||| |||||
-atagtttggattaactaaaggatcactcaattgctcatcctatttttttgttct-ttgaataattaatgttgttaaccctttctaacgaagtgcttcacagTTTTGACTTATAGGCATGAATTAGGAATGAACTATAATTTCATCCGTCCAGACTTGATTGTGGGATCATGCCTACAG

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|148952817|gb|EC898809.2|EC898809
EST:     CGAGAAGTCCGAAGTGTACAGCACTAACATGACGCAGGCTATGGGAGCAG                         CGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAG
genomic: CGAGAAGTCCGAAGTGTACAGCACTAACATGACGCAGGCTATGGGAGCAGgtaaacagaa ... gttattatagCGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAG
EST: gi|148970824|gb|EE021591.2|EE021591
EST:     CGAGAAGTCCGAAGTGTACAGCACTAACATGACGCAGGCTATGGGAGCAG                         CGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAG
genomic: CGAGAAGTCCGAAGTGTACAGCACTAACATGACGCAGGCTATGGGAGCAGgtaaacagaa ... gttattatagCGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAG
EST: gi|15427195|gb|BI543017.1|BI543017
EST:     CGAGAAGTCCGAAGTGTACAGCACTAACATGACGCAGGCTATGGGAGCAG                         CGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAG
genomic: CGAGAAGTCCGAAGTGTACAGCACTAACATGACGCAGGCTATGGGAGCAGgtaaacagaa ... gttattatagCGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAG
EST: gi|21621474|gb|BQ619480.1|BQ619480
EST:     CGAGAAGTCCGAAGTGTACAGCACTAACATGACGCAGGCTATGGGAGCAG                         CGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAG
genomic: CGAGAAGTCCGAAGTGTACAGCACTAACATGACGCAGGCTATGGGAGCAGgtaaacagaa ... gttattatagCGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAG
EST: gi|211183157|gb|FL428740.1|FL428740
EST:     CGAGAAGTCCGAAGTGTACAGCACTAACATGACGCAGGCTATGGGAGCAG                         CGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAG
genomic: CGAGAAGTCCGAAGTGTACAGCACTAACATGACGCAGGCTATGGGAGCAGgtaaacagaa ... gttattatagCGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAG
EST: gi|71435430|gb|DR816480.1|DR816480
EST:     CGAGAAGTCCGAAGTGTACAGCACTAACATGACGCAGGCTATGGGAGCAG                         CGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAG
genomic: CGAGAAGTCCGAAGTGTACAGCACTAACATGACGCAGGCTATGGGAGCAGgtaaacagaa ... gttattatagCGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAG
EST: gi|76290045|gb|DV029613.1|DV029613
EST:     CGAGAAGTCCGAAGTGTACAGCACTAACATGACGCAGGCTATGGGAGCAG                         CGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAG
genomic: CGAGAAGTCCGAAGTGTACAGCACTAACATGACGCAGGCTATGGGAGCAGgtaaacagaa ... gttattatagCGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAG
EST: gi|91052216|gb|EB162634.1|EB162634
EST:     CGAGAAGTCCGAAGTGTACAGCACTAATATGACGCAGGCTATGGGAGCAG                         CGTTGACATATAGACATGACCTCGGGATGAACTACAATTT
genomic: CGAGAAGTCCGAAGTGTACAGCACTAACATGACGCAGGCTATGGGAGCAGgtaaacagaa ... gttattatagCGTTGACATATAGACATGAACTCGGGATGAACTACAATTT
EST: gi|211478786|gb|FL377818.1|FL377818
EST:     CGAGAAGTCCGAAGTGTACAGCACTAACATGACGCAGGCTATGGGAGCAG                         CGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAG
genomic: CGAGAAGTCCGAAGTGTACAGCACTAACATGACGCAGGCTATGGGAGCAGgtaaacagaa ... gttattatagCGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAG
EST: gi|76914764|gb|DV165677.1|DV165677
EST:     CGAGAAGTCCGAAGTGTACAGCACTAACATGACGCAGGCTATGGGAGCAG                         CGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAG
genomic: CGAGAAGTCCGAAGTGTACAGCACTAACATGACGCAGGCTATGGGAGCAGgtaaacagaa ... gttattatagCGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAG
EST: gi|74234762|gb|DT642676.1|DT642676
EST:     CGAGAAGTCCGAAGTGTACAGCACTAACATGACGCAGGCTATGGGAGCAG                         CGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAG
genomic: CGAGAAGTCCGAAGTGTACAGCACTAACATGACGCAGGCTATGGGAGCAGgtaaacagaa ... gttattatagCGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAG
EST: gi|149081546|gb|EE170685.2|EE170685
EST:     CGAGAAGTCCGAAGTGTACAGCACTAACATGACGCAGGCTATGGGAGCAG                         CGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAG
genomic: CGAGAAGTCCGAAGTGTACAGCACTAACATGACGCAGGCTATGGGAGCAGgtaaacagaa ... gttattatagCGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAG
EST: gi|148967268|gb|EE018472.2|EE018472
EST:     CGAGAAGTCCGAAGTGTACAGCACTAACATGACGCAGGCTATGGGAGCAG                         CGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAG
genomic: CGAGAAGTCCGAAGTGTACAGCACTAACATGACGCAGGCTATGGGAGCAGgtaaacagaa ... gttattatagCGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAG
EST: gi|211346141|gb|FL398010.1|FL398010
EST:     CGAGAAGTCCGAAGTGTACAGCACTAACATGACGCAGGCTATGGGAGCAG                         CGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAG
genomic: CGAGAAGTCCGAAGTGTACAGCACTAACATGACGCAGGCTATGGGAGCAGgtaaacagaa ... gttattatagCGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAG
EST: gi|211266638|gb|FL405762.1|FL405762
EST:     CGAGAAGTCCGAAGTGTACAGCACTAACATGACGCAGGCTATGGGAGCAG                         CGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAG
genomic: CGAGAAGTCCGAAGTGTACAGCACTAACATGACGCAGGCTATGGGAGCAGgtaaacagaa ... gttattatagCGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAG
EST: gi|148934585|gb|EC878634.2|EC878634
EST:     CGAGAAGTCCGAAGTGTACAGCACTAACATGACGCAGGCTATGGGAGCAG                         CGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAG
genomic: CGAGAAGTCCGAAGTGTACAGCACTAACATGACGCAGGCTATGGGAGCAGgtaaacagaa ... gttattatagCGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAG
EST: gi|91876121|gb|EB406078.1|EB406078
EST:     CGAGAAGTCCGAAGTGTACAGCACTAACATGACGCAGGCTATGGGAGCAG                         CGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAG
genomic: CGAGAAGTCCGAAGTGTACAGCACTAACATGACGCAGGCTATGGGAGCAGgtaaacagaa ... gttattatagCGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttggtctattaacttatctgatatgtgtttcttttccccccatgttattatagCGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAGACTTGATTGTAGGATCCTGCTTACAG
                             tttcttttccccccat  CT-rich tract
        tattaacttat  TA-rich tract