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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgatcaatattgtttatcacatattcacatagtatcatataaacgtttgcaagaagaatttgtccgtgaaatgggattgatttacttgcttttgtagGGGAGCGTTGAGCCGAAACGTAAGGTTGTGAAACGTAGCAAGCTTGAGAAGGACAGAGAGTTGTTTGAACTGGCCCAGCAATACCACAAAGTTGTTGCAG

Basic information

species Zea mays
transcript GRMZM2G015730_T03
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G015730_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os03g17930.3 (Oryza sativa), 3'ss of exon 2
---gtgatcaatattgtttatcacatat-------tcacatagtatcatataaacgtttg-caagaagaatt--tgtccgtgaaatgggattgatttacttgcttttgtagGGGAGCGTTGAGCCGAAACGTAAGGTTGTGAAACGTAGCAAGCTTGAGAAGGACAGAGAGTTGTTTGAACTGGCCCAGCAATACCACAAAGTTGTTGCAG
   || ||   |   ||||||   || |        | ||| ||     ||     ||||  | |||| |||  ||   |  ||| ||||||||| | ||||  |||||||||||| | ||||| ||| || ||||| ||||||   |||||| | ||||||||||||||| |||||||||| || |||   |||||||| || || ||||
gttgtcattgctgaggtttataggatctggacctgcctcattgtgctgcattggtttttgataggaaggattagtgcttgctaaacgggattgatctgcttgactttgtagGGGAGTGGTGAGCAGAAGCGCAAGGTCGTGAAAAAGAGCAAGGTAGAGAAGGACAGAGAGCTGTTTGAACTTGCGCAGGCGTACCACAAGGTGGTAGCAG

upper sequence: GRMZM2G015730_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os03g17930.1 (Oryza sativa), 3'ss of exon 2
gtgatcaatattgtttatcacatattcacatagtatcatataaacgtttg-caagaagaatt--tgtccgtgaaatgggattgatttacttgcttttgtagGGGAGCGTTGAGCCGAAACGTAAGGTTGTGAAACGTAGCAAGCTTGAGAAGGACAGAGAGTTGTTTGAACTGGCCCAGCAATACCACAAAGTTGTTGCAG
    |  |||   | |   || |     ||| ||     ||     ||||  | |||| |||  ||   |  ||| ||||||||| | ||||  |||||||||||| | ||||| ||| || ||||| ||||||   |||||| | ||||||||||||||| |||||||||| || |||   |||||||| || || ||||
---gtttataggatctgg-acctgcct-cattgtgctgcattggtttttgataggaaggattagtgcttgctaaacgggattgatctgcttgactttgtagGGGAGTGGTGAGCAGAAGCGCAAGGTCGTGAAAAAGAGCAAGGTAGAGAAGGACAGAGAGCTGTTTGAACTTGCGCAGGCGTACCACAAGGTGGTAGCAG
















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|211506874|gb|FL291277.1|FL291277
EST:     CCTTGAAGAATTGTGCATCAGAGCTAGTGGGCGCTCCAACTGCTCAAAAA                         GGGAGCGTTGAGCCGAAACGTAAGGTTGTGAAACGTAGCAAGCTTGAG
genomic: CCTTGAAGAATTGTGCATCAGAGCTAGTGGGCGCTCCAACTGCTCAAAAAgtgatcaata ... gcttttgtagGGGAGCGTTGAGCCGAAACGTAAGGTTGTGAAACGTAGCAAGCTTGAG
EST: gi|149111657|gb|EE190801.2|EE190801
EST:     CCTTGAAGAATTGTGCATCAGAGCTAGTGGGCGCTCCAACTGCTCAAAAA                         GGGAGCGTTGAGCCGAAACGTAAGGTTGTGAAACGTAGCAAGCTTGAGAAG
genomic: CCTTGAAGAATTGTGCATCAGAGCTAGTGGGCGCTCCAACTGCTCAAAAAgtgatcaata ... gcttttgtagGGGAGCGTTGAGCCGAAACGTAAGGTTGTGAAACGTAGCAAGCTTGAGAAG
EST: gi|211509239|gb|FL291293.1|FL291293
EST:     CCTTGAAGAATTGTGCATCAGAGCTAGTGGGCGCTCCAACTGCTCAAAAA                         GGGAGCGTTGAGCCGAAACGTAAGGTTGTGAAACGTAGCAAGCTTGAGAAG
genomic: CCTTGAAGAATTGTGCATCAGAGCTAGTGGGCGCTCCAACTGCTCAAAAAgtgatcaata ... gcttttgtagGGGAGCGTTGAGCCGAAACGTAAGGTTGTGAAACGTAGCAAGCTTGAGAAG
EST: gi|211506879|gb|FL291282.1|FL291282
EST:     CCTTGAAGAATTGTGCATCAGAGCTAGTGGGCGCTCCAACTGCTCAAAAA                         GGGAGCGTTGAGCCGAAACGTAAGGTTGTG
genomic: CCTTGAAGAATTGTGCATCAGAGCTAGTGGGCGCTCCAACTGCTCAAAAAgtgatcaata ... gcttttgtagGGGAGCGTTGAGCCGAAACGTAAGGTTGTG
EST: gi|211509232|gb|FL291286.1|FL291286
EST:     CCTTGAAGAATTGTGCATCAGAGCTAGTGGGCGCTCCAACTGCTCAAAAA                         GGGAGCGTTGAGCCGAAACGTAAGGTTGTGAAACGTAGCAAGCTTGAGAAG
genomic: CCTTGAAGAATTGTGCATCAGAGCTAGTGGGCGCTCCAACTGCTCAAAAAgtgatcaata ... gcttttgtagGGGAGCGTTGAGCCGAAACGTAAGGTTGTGAAACGTAGCAAGCTTGAGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acgtttgcaagaagaatttgtccgtgaaatgggattgatttacttgcttttgtagGGGAGCGTTGAGCCGAAACGTAAGGTTGTGAAACGTAGCAAGCTTGAGAAGGACAGAGAGTTGTTTGAACTGGCCCAGCAATACCACAAAGTTGTTGCAG
                                gattgat  putative branch site (score: 4)
                                          cttgctttt  putative PPT
                                 attgattta  TA-rich tract