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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATGAACATGAACTCAAAAAGCAAAGAAGAAAGCAGTCCAATAGGGAGTCTGCACGTAGATCTAGGTTACGTAAACAGgtaattgtttgttcaacttgactgtactgggtactactatgttaactagttgatgatgaacaatgagttttgcag

Basic information

species Zea mays
transcript GRMZM2G088140_T02
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G088140_T03 (Zea mays), 5'ss of exon 11
lower sequence: LOC_Os12g13170.1 (Oryza sativa), 5'ss of exon 11
GATGAACATGAACTCAAAAAGCAAAGAAGAAAGCAGTCCAATAGGGAGTCTGCACGTAGATCTAGGTTACGTAAACAGgtaattgtttgttcaacttga-ctgtactgggtactactatgttaactagt---------tgatgatgaacaa--tgagttttgcag
|||||||  |||||||||| ||| |||||||| || ||||| ||||||||||| || ||||||||||| ||||| |||||| |||||||| ||  |  | || |||||| ||  | ||| ||   ||||         |||||| |   ||  | | || |||||
GATGAACGGGAACTCAAAAGGCAGAGAAGAAAACAATCCAACAGGGAGTCTGCTCGCAGATCTAGGTTGCGTAAGCAGgtatttgtttgtgcatttcaagctatactggatagaattatcttttgtagtgccttcaattgatgaagcctaacttaaattctgcag

upper sequence: GRMZM2G088140_T03 (Zea mays), 5'ss of exon 11
lower sequence: LOC_Os12g13170.3 (Oryza sativa), 5'ss of exon 10
----------------------GATGAACATGAACTCAAAAAGCAAAGAAGAAAGCAGTCCAATAGGGAGTCTGCACGTAGATCTAGGTTACGTAAACAGgtaattgtttgttcaacttga-ctgtactgggtactactatgttaactagt---------tgatgatgaacaa--tgagttttgcag
                      |||||||  |||||||||| ||| |||||||| || ||||| ||||||||||| || ||||||||||| ||||| |||||| |||||||| ||  |  | || |||||| ||  | ||| ||   ||||         |||||| |   ||  | | || |||||
TGTTGACTCTCCCATGATTCAGGATGAACGGGAACTCAAAAGGCAGAGAAGAAAACAATCCAACAGGGAGTCTGCTCGCAGATCTAGGTTGCGTAAGCAGgtatttgtttgtgcatttcaagctatactggatagaattatcttttgtagtgccttcaattgatgaagcctaacttaaattctgcag

upper sequence: GRMZM2G088140_T03 (Zea mays), 5'ss of exon 11
lower sequence: AT2G35530.1 (Arabidopsis thaliana), 5'ss of exon 11
GATGAACATGAACTCAAAAAGCAAAGAAGAAAGCAGTCCAATAGGGAGTCTGCACGTAGATCTAGGTTACGTAAACAGgtaattgtttgttcaacttgactgtactgggtactactatgttaactagttgatgatgaacaatgagttttgcag
|| ||    ||||| ||    || ||| | ||||||||||||||||||||||| || ||||| ||||| ||||||||||||  |     | ||  | ||         | ||  | |||| | | | ||  |||       |  ||  |  ||
GACGATAGAGAACTTAAGCGACAGAGACGGAAGCAGTCCAATAGGGAGTCTGCTCGAAGATCAAGGTTGCGTAAACAGgta-ctaaacatccatttagatcacctctagcacgcccatgtgagcaaattattgacccggtgtttgtgatttag

upper sequence: GRMZM2G088140_T03 (Zea mays), 5'ss of exon 11
lower sequence: AT1G32150.1 (Arabidopsis thaliana), 5'ss of exon 11
GATGAACATGAACTCAAAAAGCAAAGAAGAAAGCAGTCCAATAGGGAGTCTGCACGTAGATCTAGGTTACGTAAACAGgtaatt---gtttgttcaacttgactgtactgggtactactatgttaactagttgatgatgaacaatgagttttgcag-----------------
|||||    ||  | ||    || ||| | ||||| ||||||||||| ||||| |||||||| ||||| |||||||||||||        ||||        ||| |    | |  |  |||   |  |  |    |||| |||    |||| |                   
GATGAGAGAGAGATTAAGCGACAGAGACGGAAGCAATCCAATAGGGAATCTGCTCGTAGATCCAGGTTGCGTAAACAGgtaacataaacatgtttcttcaagctg-atctagcatcatcatgcctatcaagtatgaatgatcaaaagcttttccttttctcttctgtgttcag

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|60358086|gb|DN225059.1|DN225059
EST:     GAAAGCAGTCCAATAGGGAGTCTGCACGTAGATCTAGGTTACGTAAACAG                         GCTGAATGTGAGGAATTGGCTCAACGTGCTGATGTTTTAAAGCAGGAAAAT
genomic: GAAAGCAGTCCAATAGGGAGTCTGCACGTAGATCTAGGTTACGTAAACAGgtaattgttt ... agttttgcagGCTGAATGTGAGGAATTGGCTCAACGTGCTGATGTTTTAAAGCAGGAAAAT
EST: gi|60345747|gb|DN212720.1|DN212720
EST:     GAAAGCAGTCCAATAGGGAGTCTGCACGTAGATCTAGGTTACGTAAACAG                         GCTGAATGTGAGGAATTGGCTCAACGTGCTGATGTTTTAAAGCAGGAAAAT
genomic: GAAAGCAGTCCAATAGGGAGTCTGCACGTAGATCTAGGTTACGTAAACAGgtaattgttt ... agttttgcagGCTGAATGTGAGGAATTGGCTCAACGTGCTGATGTTTTAAAGCAGGAAAAT
EST: gi|60350100|gb|DN217073.1|DN217073
EST:     GAAAGCAGTCCAATAGGGAGTCTGCACGTAGATCTAGGTTACGTAAACAG                         GCTGAATGTGAGGAATTGGCTCAACGTGCTGATGTTTTAAAGCAGGAAAAT
genomic: GAAAGCAGTCCAATAGGGAGTCTGCACGTAGATCTAGGTTACGTAAACAGgtaattgttt ... agttttgcagGCTGAATGTGAGGAATTGGCTCAACGTGCTGATGTTTTAAAGCAGGAAAAT
EST: gi|32867163|gb|CF006845.1|CF006845
EST:     GAAAGCAGTCCAATAGGGAGTCTGCACGTAGATCTAGGTTACGTAAACAG                         GCTGAATGTGAGGAATTGGCTCAACGTGCTGATGTTTTAAAGCAGGAAAAT
genomic: GAAAGCAGTCCAATAGGGAGTCTGCACGTAGATCTAGGTTACGTAAACAGgtaattgttt ... agttttgcagGCTGAATGTGAGGAATTGGCTCAACGTGCTGATGTTTTAAAGCAGGAAAAT
EST: gi|211353575|gb|FL066643.1|FL066643
EST:     GAAAGCAGTCCAATAGGGAGTCTGCACGTAGATCTAGGTTACGTAAACAG                         GCTGAATGTGAGGAATTGGCTCAACGTGCTGATGTTTTAAAGCAGGAAAAT
genomic: GAAAGCAGTCCAATAGGGAGTCTGCACGTAGATCTAGGTTACGTAAACAGgtaattgttt ... agttttgcagGCTGAATGTGAGGAATTGGCTCAACGTGCTGATGTTTTAAAGCAGGAAAAT
EST: gi|60353486|gb|DN220459.1|DN220459
EST:     GAAAGCAGTCCAATAGGGAGTCTGCACGTAGATCTAGGTTACGTAAACAG                         GCTGAATGTGAGGAATTGGCTCAACGTGCTGATGTTTTAAAGCAGGAAAAT
genomic: GAAAGCAGTCCAATAGGGAGTCTGCACGTAGATCTAGGTTACGTAAACAGgtaattgttt ... agttttgcagGCTGAATGTGAGGAATTGGCTCAACGTGCTGATGTTTTAAAGCAGGAAAAT
EST: gi|211496290|gb|FL041702.1|FL041702
EST:     GAAAGCAGTCCAATAGGGAGTCTGCACGTAGATCTAGGTTACGTAAACAG                         GCTGAATGTGAGGAATTGGCTCAACGTGCTGATGTTTTAAAGCAGGAAAAT
genomic: GAAAGCAGTCCAATAGGGAGTCTGCACGTAGATCTAGGTTACGTAAACAGgtaattgttt ... agttttgcagGCTGAATGTGAGGAATTGGCTCAACGTGCTGATGTTTTAAAGCAGGAAAAT
EST: gi|71772544|gb|DR970475.1|DR970475
EST:     GAAAGCAGTCCAATAGGGAGTCTGCACGTAGATCTAGGTTACGTAAACAG                         GCTGAATGTGAGGAATTGGCTCAACGTGCTGATGTTTTAAAGCAGGAAAAT
genomic: GAAAGCAGTCCAATAGGGAGTCTGCACGTAGATCTAGGTTACGTAAACAGgtaattgttt ... agttttgcagGCTGAATGTGAGGAATTGGCTCAACGTGCTGATGTTTTAAAGCAGGAAAAT
EST: gi|32847056|gb|CD986737.1|CD986737
EST:     GAAAGCAGTCCAATAGGGAGTCTGCACGTAGATCTAGGTTACGTAAACAG                         GCTGAATGTGAGGAATTGGCTCAACGTGCTGATGTTTTAAAGCAGGAAAAT
genomic: GAAAGCAGTCCAATAGGGAGTCTGCACGTAGATCTAGGTTACGTAAACAGgtaattgttt ... agttttgcagGCTGAATGTGAGGAATTGGCTCAACGTGCTGATGTTTTAAAGCAGGAAAAT