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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gctgacaactttaaacttttctcttttagtgttgtgcagttatatttttcccaacccattaaatttgggtttctgacaagtaccatatctcttttttcagTGAGCAGGATAACTATGAAGTTGTTAGGAAAGTTGGGAGAGGGAAATACAGTGAAGTCTTTGAGGGTATTAATGTTAACAATAATGAGAAATGCATCATT

Basic information

species Zea mays
transcript GRMZM5G845755_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G845755_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os07g02350.1 (Oryza sativa), 3'ss of exon 1
gctgacaactttaaacttttctcttttagtgt-----tgtgcagttatatttttcccaacccattaaatttg-ggtttctgacaagtaccatatctcttttttcagTGAGCAGGATAACTATGAAGTTGTTAGGAAAGTTGGGAGAGGGAAATACAGTGAAGTCTTTGAGGGTATTAATGTTAACAATAATGAGAAATGCATCATT
  | |     | |      || |    | |||     || ||| ||||||||| |||| || ||    ||    || |||||    |     ||||||||   ||||||||||||| | ||||||||||| ||||||||||||||||| |||||||| || |||||||||||||||||||| ||||| ||||| |||||||| || 
--tcatgctgtgagtgagctcacaaaaaatgtccaactgggcacttatatttt-cccagcctatcctgttaacagtatctga---atttatgatctctttgagcagTGAGCAGGATGATTATGAAGTTGTCAGGAAAGTTGGGAGAGGAAAATACAGCGAGGTCTTTGAGGGTATTAATGTCAACAACAATGAAAAATGCATTATC
















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|149081763|gb|EE170917.2|EE170917
EST:     CTGCGCCCCAAGGAGTACTGGGACTACGAGGCGCTCACCGTTCAATGGGG                         TGAGCAGGATAACTATGAAGTTGTTAGGAAAGTTGGGAGAGGGAAATACAG
genomic: CTGCGCCCCAAGGAGTACTGGGACTACGAGGCGCTCACCGTTCAATGGGGgtcagtgatc ... cttttttcagTGAGCAGGATAACTATGAAGTTGTTAGGAAAGTTGGGAGAGGGAAATACAG
EST: gi|148990948|gb|EE032377.2|EE032377
EST:     CTGCGCCCCAAGGAGTACTGGGACTACGAGGCGCTCACCGTTCAATGGGG                         TGAGCAGGATAACTATGAAGTTGTTAGGAAAGTTGGGAGAGGGAAATACAG
genomic: CTGCGCCCCAAGGAGTACTGGGACTACGAGGCGCTCACCGTTCAATGGGGgtcagtgatc ... cttttttcagTGAGCAGGATAACTATGAAGTTGTTAGGAAAGTTGGGAGAGGGAAATACAG
EST: gi|29946904|gb|CB816382.1|CB816382
EST:     CTGCGCCCCAAGGAGTACTGGGACTACGAGGCGCTCACCGTTCAATGGGG                         TGAGCAGGATAACTATGAAGTTGTTAGGAAAGTTGGGAGAGGGAAATACAG
genomic: CTGCGCCCCAAGGAGTACTGGGACTACGAGGCGCTCACCGTTCAATGGGGgtcagtgatc ... cttttttcagTGAGCAGGATAACTATGAAGTTGTTAGGAAAGTTGGGAGAGGGAAATACAG
EST: gi|5268357|gb|AI770321.1|AI770321
EST:     CTGCGCCCCAAGGAGTACTGGGACTACGAGGCGCTCACCGTTCAATGGGG                         TGAGCAGGATAACTATGAAGTTGTTAGGAAAGTTGGGAGAGGGAAATACAG
genomic: CTGCGCCCCAAGGAGTACTGGGACTACGAGGCGCTCACCGTTCAATGGGGgtcagtgatc ... cttttttcagTGAGCAGGATAACTATGAAGTTGTTAGGAAAGTTGGGAGAGGGAAATACAG
EST: gi|149004751|gb|EE039248.2|EE039248
EST:     CTGCGCCCCAAGGAGTACTGGGACTACGAGGCGCTCACCGTTCAATGGGG                         TGAGCAGGATAACTATGAAGTTGTTAGGAAAGTTGGGAGAGGGAAATACAG
genomic: CTGCGCCCCAAGGAGTACTGGGACTACGAGGCGCTCACCGTTCAATGGGGgtcagtgatc ... cttttttcagTGAGCAGGATAACTATGAAGTTGTTAGGAAAGTTGGGAGAGGGAAATACAG
EST: gi|78115139|gb|DV533527.1|DV533527
EST:     CTGCGCCCCAAGGAGTACTGGGACTACGAGGCGCTCACCGTTCAATGGGG                         TGAGCAGGATAACTATGAAGTTGTTAGGAAAGTTGGGAGAGGGAAATACAG
genomic: CTGCGCCCCAAGGAGTACTGGGACTACGAGGCGCTCACCGTTCAATGGGGgtcagtgatc ... cttttttcagTGAGCAGGATAACTATGAAGTTGTTAGGAAAGTTGGGAGAGGGAAATACAG
EST: gi|211130017|gb|FL138061.1|FL138061
EST:     CTGCGCCCCAAGGAGTACTGGGACTACGAGGCGCTCACCGTTCAATGGGG                         TGAGCAGGATAACTATGAAGTTGTTATTAAAGTTGGGAGAGGGAAATACAG
genomic: CTGCGCCCCAAGGAGTACTGGGACTACGAGGCGCTCACCGTTCAATGGGGgtcagtgatc ... cttttttcagTGAGCAGGATAACTATGAAGTTGTTAGGAAAGTTGGGAGAGGGAAATACAG
EST: gi|149078770|gb|EE167579.2|EE167579
EST:     CTGCGCCCCAAGGAGTACTGGGACTACGAGGCGCTCACCGTTCAATGGGG                         TGAGCAGGATAACTATGAAGTTGTTAGGAAAGTTGGGAGAGGGAAATACAG
genomic: CTGCGCCCCAAGGAGTACTGGGACTACGAGGCGCTCACCGTTCAATGGGGgtcagtgatc ... cttttttcagTGAGCAGGATAACTATGAAGTTGTTAGGAAAGTTGGGAGAGGGAAATACAG
EST: gi|211130018|gb|FL138062.1|FL138062
EST:     CTGCGCCCCAAGGAGTACTGGGACTACGAGGCGCTCACCGTTCAATGGGG                         TGAGCAGGATAACTATGAAGTTGTTAGGAAAGTTGGGAGAGGGAAATACAG
genomic: CTGCGCCCCAAGGAGTACTGGGACTACGAGGCGCTCACCGTTCAATGGGGgtcagtgatc ... cttttttcagTGAGCAGGATAACTATGAAGTTGTTAGGAAAGTTGGGAGAGGGAAATACAG
EST: gi|31355313|gb|CD439670.1|CD439670
EST:     CTGCGCCCCAAGGAGTACTGGGACTACGAGGCGCTCACCGTTCAATGGGG                         TGAGCAGGATAACTATGAAGTTGTTAGGAAAGTTGGGAGAGGGAAATATTT
genomic: CTGCGCCCCAAGGAGTACTGGGACTACGAGGCGCTCACCGTTCAATGGGGgtcagtgatc ... cttttttcagTGAGCAGGATAACTATGAAGTTGTTAGGAAAGTTGGGAGAGGGAAATACAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttcccaacccattaaatttgggtttctgacaagtaccatatctcttttttcagTGAGCAGGATAACTATGAAGTTGTTAGGAAAGTTGGGAGAGGGAAATACAGTGAAGTCTTTGAGGGTATTAATGTTAACAATAATGAGAAATGCATCATT
                         ttctgac  putative branch site (score: 2)
                                     ccatatctcttttttc  putative PPT
            attaaattt  TA-rich tract