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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCATATAGGAGTAACTGTGGATGATGTCCACAAGGCATGTGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgattttgctttgtagtgttactcaaacatgaaaattaaatagttaaaatcttctttctgtaagatttgcagggtaactgagcatattacgactg...

Basic information

species Zea mays
transcript GRMZM2G125310_T01
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G125310_T01 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os05g22970.1 (Oryza sativa), 5'ss of exon 7
GTCATATAGGAGTAACTGTGGATGATGTCCACAAGGCATGTGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgattttg-------ctttgtagtgttactcaaacatgaaaattaaatagt--taaaatcttctttctgtaagatttgcagggtaactgagcatattacgactg
|||||||||||||||||||  | |||||| | ||||| ||||| || || |||||||||||||| |||||||| || || || ||||||||||  | |||||        |||| || | ||  |  | ||| |   ||   | ||  | ||||     ||||  |  | |             |  | |         
GTCATATAGGAGTAACTGTTCACGATGTCTATAAGGCGTGTGAGCGGTTCGAACGTCTTGGGGTAGAGTTTGTTAAAAAGCCAGATGATGgtaaattatttttacttagcctttttattttttattcatcatcagtgttgtgtggtgttcaaatgcatattctacacaaatcaggatcctttcaaagaga---------

upper sequence: GRMZM2G125310_T01 (Zea mays), 5'ss of exon 7
lower sequence: Vv06s0061g00460.t01 (Vitis vinifera), 5'ss of exon 7
GTCATATAGGAGTAACTGTGGATGATGTCCACAAGGCATGTGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgattttgctttg----tagtgttactcaaacatgaaaattaaatagttaaaatcttctttctgtaagatttgcag-ggtaactgagcatattacgactg
| || |||||  | || || |||||     |||||||||| ||| | ||||||||||| |||||||||||||| || ||||| ||||||||||  | |  ||  |||      | | ||  |  | ||  |  ||       | |  | | ||  | | |  | |||  |   |||  || |  ||     ||||
GACACATAGGCATCACAGTCGATGACACATACAAGGCATGCGAAAGATTTGAACGTCTAGGGGTTGAGTTTGTAAAAAAACCAGATGATGgtaactcacctttttttaattccatttttcattgagcactatcatgtctccttaatgaacatcggtttcttgggtttaaattagtaggtgggggta-----actg
















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|78113103|gb|DV531497.1|DV531497
EST:     TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATG                         GAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
genomic: TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgatt ... tttgctgcagGAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
EST: gi|21843377|gb|BQ703958.1|BQ703958
EST:     TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAACCCTGATGATG                         GAAAAATCAAAGGCATCGCTTTCATCAAAGATCCCTGATGGTTACTGGATC
genomic: TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgatt ... tttgctgcagGAAAAATCAAAGGCATCGCTTTCATCAAAGATCC-TGATGGTTACTGGATC
EST: gi|149071547|gb|EE159940.2|EE159940
EST:     TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATG                         GAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
genomic: TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgatt ... tttgctgcagGAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
EST: gi|18168536|gb|BM338376.1|BM338376
EST:     TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATG                         GAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
genomic: TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgatt ... tttgctgcagGAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
EST: gi|37378102|gb|CF625710.1|CF625710
EST:     TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATG                         GAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
genomic: TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgatt ... tttgctgcagGAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
EST: gi|211376692|gb|FL282315.1|FL282315
EST:     TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATG                         GAAAA-TCAAAGGCATCGCT
genomic: TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgatt ... tttgctgcagGAAAAATCAAAGGCATCGCT
EST: gi|13178656|gb|BG349914.1|BG349914
EST:     TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATG                         GAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
genomic: TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgatt ... tttgctgcagGAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
EST: gi|113701200|gb|EE678704.1|EE678704
EST:     TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATG                         GAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
genomic: TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgatt ... tttgctgcagGAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
EST: gi|211215770|gb|FL437216.1|FL437216
EST:     TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATG                         GAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
genomic: TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgatt ... tttgctgcagGAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
EST: gi|18172655|gb|BM348043.1|BM348043
EST:     TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATG                         GAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
genomic: TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgatt ... tttgctgcagGAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
EST: gi|211338211|gb|FL470835.1|FL470835
EST:     TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATG                         GAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
genomic: TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgatt ... tttgctgcagGAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
EST: gi|113788942|gb|DW908210.1|DW908210
EST:     TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATG                         GAAAAATCAAAGGC
genomic: TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgatt ... tttgctgcagGAAAAATCAAAGGC
EST: gi|211280531|gb|FL042849.1|FL042849
EST:     TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATG                         GAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATTG
genomic: TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgatt ... tttgctgcagGAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
EST: gi|13178258|gb|BG349516.1|BG349516
EST:     TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATG                         GAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
genomic: TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgatt ... tttgctgcagGAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
EST: gi|13178537|gb|BG349795.1|BG349795
EST:     TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATG                         GAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
genomic: TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgatt ... tttgctgcagGAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
EST: gi|67022929|gb|CO451678.1|CO451678
EST:     TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATG                         GAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
genomic: TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgatt ... tttgctgcagGAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
EST: gi|113703344|gb|EE680848.1|EE680848
EST:     TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATG                         GAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
genomic: TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgatt ... tttgctgcagGAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
EST: gi|30087092|gb|CB885300.1|CB885300
EST:     TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATG                         GAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACCGGATCG
genomic: TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgatt ... tttgctgcagGAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
EST: gi|15056964|gb|BI360936.1|BI360936
EST:     TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATG                         GAAAAATCAAAGGCATCGCTTTCATCAAAGGTCCTGATGGTTACTGGATCG
genomic: TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgatt ... tttgctgcagGAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
EST: gi|18163234|gb|BM333073.1|BM333073
EST:     TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATG                         GAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
genomic: TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgatt ... tttgctgcagGAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
EST: gi|211282338|gb|FL042861.1|FL042861
EST:     TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATG                         GAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
genomic: TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgatt ... tttgctgcagGAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
EST: gi|18173071|gb|BM348459.1|BM348459
EST:     TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATG                         GAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
genomic: TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgatt ... tttgctgcagGAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
EST: gi|13558789|gb|BG550144.1|BG550144
EST:     TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATG                         GAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
genomic: TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgatt ... tttgctgcagGAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
EST: gi|16378122|gb|BI992284.1|BI992284
EST:     GGTTGAGTTTGTGAAGAAACCTGATGATG                         GAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
genomic: GGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgatt ... tttgctgcagGAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
EST: gi|29167847|gb|CB411107.1|CB411107
EST:     TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATG                         GAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
genomic: TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgatt ... tttgctgcagGAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
EST: gi|67031599|gb|CO460348.1|CO460348
EST:     TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATG                         GAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
genomic: TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgatt ... tttgctgcagGAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
EST: gi|40334690|gb|CK368760.1|CK368760
EST:     TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATG                         GAAAAATCAA-GGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
genomic: TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgatt ... tttgctgcagGAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
EST: gi|211376693|gb|FL282316.1|FL282316
EST:     TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAGGAAACCTGATGATG                         GAAAA-TCAAAGGCATCGCTT
genomic: TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgatt ... tttgctgcagGAAAAATCAAAGGCATCGCTT
EST: gi|213175278|gb|FM194527.1|FM194527
EST:     TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATG                         GAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
genomic: TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgatt ... tttgctgcagGAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
EST: gi|84977276|gb|DW475698.1|DW475698
EST:     TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATG                         GAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
genomic: TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgatt ... tttgctgcagGAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
EST: gi|32868452|gb|CF008134.1|CF008134
EST:     TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATG                         GAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
genomic: TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgatt ... tttgctgcagGAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
EST: gi|149069536|gb|EE157909.2|EE157909
EST:     TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATG                         GAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
genomic: TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgatt ... tttgctgcagGAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
EST: gi|113702988|gb|EE680492.1|EE680492
EST:     TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATG                         GAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
genomic: TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgatt ... tttgctgcagGAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
EST: gi|78080156|gb|DV508568.1|DV508568
EST:     TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATG                         GAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
genomic: TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgatt ... tttgctgcagGAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
EST: gi|30032081|gb|CB833932.1|CB833932
EST:     TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATG                         GAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
genomic: TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgatt ... tttgctgcagGAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
EST: gi|40303115|gb|CK347502.1|CK347502
EST:     TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATG                         GAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG
genomic: TGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgatt ... tttgctgcagGAAAAATCAAAGGCATCGCTTTCATCAAAGATCCTGATGGTTACTGGATCG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTCATATAGGAGTAACTGTGGATGATGTCCACAAGGCATGTGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATGgtaggtgattttgctttgtagtgttactcaaacatgaaaattaaatagttaaaatcttctttctgtaagatttgcagggtaactgagcatattacgactg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA