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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caacagaaaggcttctgcttatatttgaatgttattgttctcatatattaacatgatttagcagctacactgactcctttttgttttattccacctgaagCTCGGTACTGGTTTGAGTATCTTTATCTCAAAAAGGAATCCCTCACTGGTGACTTCGTTTGCCTTCCTTTCCTGTGGATATCTCCTGAGTTCATATCAAG

Basic information

species Zea mays
transcript GRMZM2G081188_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G081188_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os01g66350.1 (Oryza sativa), 3'ss of exon 6
caacagaaaggcttctg-cttatatttgaatgttattgttctcata-tatta-acatgatttagcagctacactgactcctttttgttttattccacctgaagCTCGGTACTGGTTTGAGTATCTTTATCTCAAAAAGGAATCCCTCACTGGTGACTTCGTTTGCCTTCCTTTCCTGTGGATATCTCCTGAGTTCATATCAAG
 | ||||| |  || |  || |  || |||||||| |  ||||||| || || || | ||| ||||| ||  ||||||     |||||  |||  |  ||||||| || ||||| ||||| ||||| || |||||| ||||||| ||| |||||||||| |||||||||||||| ||||| |||||   |||||||||||| |
-agcagaatgttttttaactcactttggaatgttactagtctcatactactatacttaattcagcagttatcctgactttgccttgtt--attttaaatgaagCTGGGCACTGGCTTGAGCATCTTCATTTCAAAACGGAATCCATCATTGGTGACTTCATTTGCCTTCCTTTCATGTGGTTATCTTTGGAGTTCATATCATG

upper sequence: GRMZM2G081188_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv12s0035g01870.t01 (Vitis vinifera), 3'ss of exon 6
caacagaaaggcttctgcttatatttgaatgttattgttctcatatattaacatgatttagcagctacactgactcctttttgtt-----ttattccacctgaagCTCGGTACTGGTTTGAGTATCTTTATCTCAAAAAGGAATCCCTCACTGGTGACTTCGTTTGCCTTCCTTTCCTGTGGATATCTCCTGAGTTCATATCAAG
        |||||  |  |||||||    |  | | ||   ||    | | |||||| ||      || |  | |   | |   |     || |      ||||||| || ||||| ||||||||| | ||||| ||||| ||||| |||||||||||  | |||||  ||||||| ||||||||| || | ||||| || ||||
----tactaggctggtaattatattctg-ttctctggtgtacactcttaagcatgatatatttctaactcgaatttaatgtgagtaaaccttctgttttgtgaagCTGGGAACTGGATTGAGTATCATGATCTCCAAAAGAAATCCGTCACTGGTGACCACATTTGCACTCCTTTCATGTGGATATGTCTTAAGTTCTTACCAAG
















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|211302733|gb|FL372536.1|FL372536
EST:     TTGGAGATGTCACTGCTAAAGGCGAATCTGTTGGGAACATTGCAGATCTG                         CTCGGTACTGGTTTGAGTATCTTTATCTCAAAAAGGAATCCCTCACTGGTG
genomic: TTGGAGATGTCACTGCTAAAGGCGAATCTGTTGGGAACATTGCAGATCTGgtaaaaatca ... ccacctgaagCTCGGTACTGGTTTGAGTATCTTTATCTCAAAAAGGAATCCCTCACTGGTG
EST: gi|211421799|gb|FL427212.1|FL427212
EST:     TTGGAGATGTCACTGCTAAAGGCGAATCTGTTGGGAACATTGCAGATCTG                         CTCGGTACTGGTTTGAGTATCTTTATCTCAAAAAGGAATCCCTCACTGGTG
genomic: TTGGAGATGTCACTGCTAAAGGCGAATCTGTTGGGAACATTGCAGATCTGgtaaaaatca ... ccacctgaagCTCGGTACTGGTTTGAGTATCTTTATCTCAAAAAGGAATCCCTCACTGGTG
EST: gi|31353527|gb|CD437884.1|CD437884
EST:     TTGGAGATGTCACTGCTAAAGGCGAATCTGTTGGGAACATTGCAGATCTG                         CTCGGTACTGGTTTGAGTATCTTTATCTCAAAAAGGAATCCCTCACTGGTG
genomic: TTGGAGATGTCACTGCTAAAGGCGAATCTGTTGGGAACATTGCAGATCTGgtaaaaatca ... ccacctgaagCTCGGTACTGGTTTGAGTATCTTTATCTCAAAAAGGAATCCCTCACTGGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattaacatgatttagcagctacactgactcctttttgttttattccacctgaagCTCGGTACTGGTTTGAGTATCTTTATCTCAAAAAGGAATCCCTCACTGGTGACTTCGTTTGCCTTCCTTTCCTGTGGATATCTCCTGAGTTCATATCAAG
                            ctcctttttgttttat  CT-rich tract
                                tttttgttttatt  TA-rich tract