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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGGTTCCAGCTGGAGGCACTGCAAACCCCATCTGTTGTAAGGTGCTGTAGGCGCCCCTCCGGTTGCATCATCCAGGACATGCCCAATGGCTACTCTAGCgtgagcttttcaattcacttgtgctgttttatttgtgcgtgagcatagggttctttggtgatgcctactcagccagcactggtcactggggttgacacgttatttatctgcatgcag

Basic information

species Zea mays
transcript GRMZM2G123140_T04
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G123140_T05 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os10g42490.1 (Oryza sativa), 5'ss of exon 8
---GGGGTTCCAGCTGGAGGCACTGCAAACCCCATCTGTTGTAAGGTGCTGTAGGCGCCCCTCCGGTTGCATCATCCAGGACATGCCCAATGGCTACTCTAGCgtgagcttttcaattcacttgtgctgttttatttgtgcgtgagcatagggttctttggtgatgcctactcagccagcactggtcactggggttgacacgttatttatctgcatgcag
    |||||  ||  || |   || ||| || |    || || |||||| |  |||| || ||||| |||||||||||||||||||||||||| ||||| || ||  |    |    |  | |  | ||||  ||||| || ||| |||         ||   ||| | |  |||                                             
GGAAGGGTTTGAGGAGGGGCTCCTCCAAGCCTCG---GTGGTCAGGTGCCGGCGGCGGCCGTCCGGCTGCATCATCCAGGACATGCCCAATGGATACTCCAGGgtacgtacatacgcttgcattgggtgtta-atttgagcatgaacatgaatggaggtgacaatggcaatgcag---------------------------------------------

upper sequence: GRMZM2G123140_T05 (Zea mays), 5'ss of exon 5
lower sequence: EFJ19972 (Selaginella moellendorffii), 5'ss of exon 7
-GGGGTTCCAGCTGGAGGCACTGCAAACCCCATCTGTTGTAAGGTGCTGTAGGCGCCCCTCCGGTTGCATCATCCAGGACATGCCCAATGGCTACTCTAGCgtgagc----------ttttcaattca--cttgtgctgtttt------atttgtgcgtgagcatagggttctttggtgatgcctactcagccagc-actggtcactggggttgacacgttatttatctgcatgcag
 | || | |    |   ||   |||  | || |||       ||||| | || |||||||| || |   |||||||||||||||||||||||||||| |  ||  ||          ||||  | ||   |||  |||| |||       | |    | |||     || |||   |||     |    | |||   ||| ||   | || ||     ||  |       | |  ||
CGTGGATGCGCTCGCTCGCGAGGCAG-CGCCCTCTTCCAATCGGTGCCGGAGACGCCCCTCGGGATATCTCATCCAGGACATGCCCAATGGCTACTCAAAGgtacgcacaaaatcacttttttactcgttcttccgctgctttctcgccgtctccatgggagtccgaggctctggtgtgtgatgtgacaatccattgacttgtgcgttggattcttgtgtgctgcgaaaacttttag

upper sequence: GRMZM2G123140_T05 (Zea mays), 5'ss of exon 5
lower sequence: EFJ10492 (Selaginella moellendorffii), 5'ss of exon 7
-GGGGTTCCAGCTGGAGGCACTGCAAACCCCATCTGTTGTAAGGTGCTGTAGGCGCCCCTCCGGTTGCATCATCCAGGACATGCCCAATGGCTACTCTAGCgtgagc----------ttttcaattca--cttgtgctgtttt------atttgtgcgtgagcatagggttctttggtgatgcctactcagccagc-actggtcactggggttgacacgttatttatctgcatgcag
 |  | | |    |   ||   |||  | || |||       ||||| | || |||||||| || |   |||||||||||||||||||||||||||| |  ||  ||          ||||  | ||   |||  |||| |||       | |    | |||     || |||   |||     |    | |||   ||| ||   | || ||     ||  |       | |  ||
CGTAGATGCGCTCGCTCGCGAGGCAG-CGCCCTCTTCCAATCGGTGCCGGAGACGCCCCTCGGGATATCTCATCCAGGACATGCCCAATGGCTACTCAAAGgtacgcacaaaatcacttttttactcgttcttccgctgctttctcgtcgtctccatgggagtccgaggctctggtgtgtgatgtgacaatccattgacttgtgcgttggattcttgtgtgctgcgaaaacttttag

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|149102263|gb|EE188158.2|EE188158
EST:     GGCGCCCCTCCGGTTGCATCATCCAGGACATGCCCAATGGCTACTCTAGC                         GTGGTGTGGGTGGAGCACACGGAGATTGTTGGAGAGGAGAAGCCACTGCAC
genomic: GGCGCCCCTCCGGTTGCATCATCCAGGACATGCCCAATGGCTACTCTAGCgtgagctttt ... ctgcatgcagGTGGTGTGGGTGGAGCACACGGAGATTGTTGGAGAGGAGAAGCCACTGCAC
EST: gi|149083873|gb|EE173247.2|EE173247
EST:     GGCGCCCCTCCGGTTGCATCATCCAGGACATGCCCAATGGCTACTCTAGC                         GTGGTGTGGGTGGAGCACACGGAGATTGTTGGAGAGGAGAAGCCACTGCAC
genomic: GGCGCCCCTCCGGTTGCATCATCCAGGACATGCCCAATGGCTACTCTAGCgtgagctttt ... ctgcatgcagGTGGTGTGGGTGGAGCACACGGAGATTGTTGGAGAGGAGAAGCCACTGCAC