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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttgccataaatatgtgccggatatttgtatttttctattcttgctgagcaatttaccatatgtctcattagGTTGGGGACTTGACTCTGTTGAGAGCGGAGACGCACAAATTTGAGTCTCATTATATGGACAATCTTGTAG

Basic information

species Zea mays
transcript GRMZM2G120302_T02
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G120302_T02 (Zea mays), 3'ss of exon 14
lower sequence: LOC_Os06g11180.1 (Oryza sativa), 3'ss of exon 14
------------------------gtaagttgccataaatatgtgccggatatttgtatttttctattcttgctgagcaatttaccatatgtctcattagGTTGGGGACTTGACTCTGTTGAGAGCGGAGACGCACAAATTTGAGTCTCATTATATGGACAATCTTGTAG
                         |  ||  | | | | |  |      ||||       || |   ||||         |||||||||   | |  || |||| |||||  || |||||||||| ||||| |||||||| |||||||| ||||  |||||||||||||
gtccacctttgtaacgtcaatcatttttgtctctacatagacataagaactattgagcagattgttgacttgtcatttttattaccatattaatgagcagATTGGTGACTTATCTTTGTTGAGAGCAGAGACACACAAATTCGAGTCTCACTATACTGACAATCTTGTAG

upper sequence: GRMZM2G120302_T02 (Zea mays), 3'ss of exon 14
lower sequence: Vv18s0001g11140.t01 (Vitis vinifera), 3'ss of exon 14
------------gtaagttgccataaat---atgtgccggatatttgtatttttctattcttgctgagcaatttaccatatgt------ctcat---tagGTTGGGGACTTGACTCTGTTGAGAGCGGAGACGCACAAATTTGAGTCTCATTATATGGACAATCTTGTAG
             ||  |   |||   |   || |      | ||||   |||||||    || | | |     |   |||||      | |||   ||||| |  |||||| | |||||| ||||||| || |||||||||||||||||||| || || |||||||| |
atctatctctatatatataatcatgtcttaaatttagaaattttttgctattttctagaaatggtaaactgacaatgctatgttaatggcccatgaatagGTAGCTGACTTGTCCCTGTTGCGAGCGGAAACTCACAAATTTGAGTCTCATTACATTGATAATCTTGTTG
















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|33091583|gb|CF051577.1|CF051577
EST:     CGTTCAAGGCTGGAGCTTCTCTCTATGGT                         GTTGGGGACTTGACTCTGTTGAGAGCGGAGACGCACAAATTTGAGTCTCAT
genomic: CGTTCAAGGCTGGAGCTTCTCTCTATGGTgtaagttgcc ... gtctcattagGTTGGGGACTTGACTCTGTTGAGAGCGGAGACGCACAAATTTGAGTCTCAT
EST: gi|5847476|gb|AW000555.1|AW000555
EST:     CTTCACTTGCATTCAGAGACACGTTCAAGGCTGGAGCTTCTCTCTATGGT                         GTTGGGGACTTGACTCTGTTGAGAGCGGAGACACACAAATTTGAGTCTCAT
genomic: CTTCACTTGCATTCAGAGACACGTTCAAGGCTGGAGCTTCTCTCTATGGTgtaagttgcc ... gtctcattagGTTGGGGACTTGACTCTGTTGAGAGCGGAGACGCACAAATTTGAGTCTCAT
EST: gi|6031233|gb|AW076135.1|AW076135
EST:     CTTCACTTGCATTCAGAGACACGTTCAAGGCTGGAGCTTCTCTCTATGGT                         GGTGGGGACTTGACTCTGTTGAGAGCGGAGACACACAAATTTGAGTCTCAT
genomic: CTTCACTTGCATTCAGAGACACGTTCAAGGCTGGAGCTTCTCTCTATGGTgtaagttgcc ... gtctcattagGTTGGGGACTTGACTCTGTTGAGAGCGGAGACGCACAAATTTGAGTCTCAT
EST: gi|32935186|gb|CF039998.1|CF039998
EST:     CTTCACTTGCATTCAGAGACACGTTCAAGGCTGGAGCTTCTCTCTATGGT                         GTTGGGGACTTGACTCTGTTGAGAGCGGAGACGCACAAATTTGAGTCTCAT
genomic: CTTCACTTGCATTCAGAGACACGTTCAAGGCTGGAGCTTCTCTCTATGGTgtaagttgcc ... gtctcattagGTTGGGGACTTGACTCTGTTGAGAGCGGAGACGCACAAATTTGAGTCTCAT
EST: gi|32934798|gb|CF039610.1|CF039610
EST:     CGTTCAAGGCTGGAGCTTCTCTCTATGGT                         GTTGGGGACTTGACTCTGTTGAGAGCGGAGACGCACAAATTTGAGTCTCAT
genomic: CGTTCAAGGCTGGAGCTTCTCTCTATGGTgtaagttgcc ... gtctcattagGTTGGGGACTTGACTCTGTTGAGAGCGGAGACGCACAAATTTGAGTCTCAT
EST: gi|211313026|gb|FL032573.1|FL032573
EST:     CTTCACTTGCATTCAGAGACACGTTCAAGGCTGGAGCTTCTCTCTATGGT                         GTTGGGGACTTGACTCTGTTGAGAGCGGAGACGCACAAATTTGAGTCTCAT
genomic: CTTCACTTGCATTCAGAGACACGTTCAAGGCTGGAGCTTCTCTCTATGGTgtaagttgcc ... gtctcattagGTTGGGGACTTGACTCTGTTGAGAGCGGAGACGCACAAATTTGAGTCTCAT
EST: gi|148961815|gb|EE012596.2|EE012596
EST:     CTTCACTTGCATTCAGAGACACGTTCAAGGCTGGAGCTTCTCTCTATGGT                         GTTGGGGACTTGACTCTGTTGAGAGCGGAGACGCACAAATTTGAGTCTCAT
genomic: CTTCACTTGCATTCAGAGACACGTTCAAGGCTGGAGCTTCTCTCTATGGTgtaagttgcc ... gtctcattagGTTGGGGACTTGACTCTGTTGAGAGCGGAGACGCACAAATTTGAGTCTCAT
EST: gi|148972938|gb|EE023964.2|EE023964
EST:     CTTCACTTGCATTCAGAGACACGTTCAAGGCTGGAGCTTCTCTCTATGGT                         GTTGGGGACTTGACTCTGTTGAGAGCGGAGACGCACAAATTTGAGTCTCAT
genomic: CTTCACTTGCATTCAGAGACACGTTCAAGGCTGGAGCTTCTCTCTATGGTgtaagttgcc ... gtctcattagGTTGGGGACTTGACTCTGTTGAGAGCGGAGACGCACAAATTTGAGTCTCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccggatatttgtatttttctattcttgctgagcaatttaccatatgtctcattagGTTGGGGACTTGACTCTGTTGAGAGCGGAGACGCACAAATTTGAGTCTCATTATATGGACAATCTTGTAG
                                              tctcatt  CT-rich tract
     tatttgtatttttcta  TA-rich tract