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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGAGCTGGAGAAGCCGTGCTATTGCAATCTCAAGGTGGTGAACAACAGCGAGCATCATGTCGCATTCAAGgtccatgtcttccctgtcccgtgaagttcacctcagaatctccgcgttttgctcgctgaaaatcgaaccaggtttgatgttgagatgagaagaaaactagactaggtctggtcaaatttgccccatttattttcag

Basic information

species Zea mays
transcript GRMZM2G171406_T06
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G171406_T06 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os02g43594.1 (Oryza sativa), 5'ss of exon 3
TTGAGCTGGAGAAGCCGTGCTATTGCAATCTCAAGGTGGTGAACAACAGCGAGCATCATGTCGCATTCAAGgtccatgtcttccctgtcccgtgaagttcacctcagaatctccgcgttttgctcgctgaaaatcgaaccaggtttgatgttgagatgagaagaaaactagactaggtctggtcaaatttgccccatttattttcag
|||||||||| || ||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||     |||  |    | || ||| |   |      | ||  | |    |  ||| |     ||        |         |  |   | |   |    ||                                 
TTGAGCTGGACAAACCGTGCTATTGCAATCTCAAGGTGGTGAACAACAGCGAGCATCATGTTGCATTCAAGgt----atctatcgaaactcgcgaactcaccgctgagagctgagagacgagagcgccgtgcgccggcgaccactccggtccccggcggccacacctcccacctg--------------------------------

upper sequence: GRMZM2G171406_T06 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os10g40140.1 (Oryza sativa), 5'ss of exon 3
TTGAGCTGGAGAAGCCGTGCTATTGCAATCTCAAGGTGGTGAACAACAGCGAGCATCATGTCGCATTCAAGgtccatgtcttccctgtcccgtgaagttcacctcagaatctccgcgttttgctcgctgaaaatcgaaccaggtttgatgttgagatgagaagaaaactagactaggtctggtcaaatttgccccatttattttcag
||||||| || ||||| |||||||||||||||||||||||||||||||||||||||||||| ||||| |||||||||| | | ||  |  | |||       |  | | | || |    |||      |||  |   |  |  |||  | || ||                                                    
TTGAGCTAGATAAGCCATGCTATTGCAATCTCAAGGTGGTGAACAACAGCGAGCATCATGTTGCATTTAAGgtccatggccttcc-atttcatga-------ccaatattttctgaaacttggcaa--gaaggtttgatgaaatttttttttcag----------------------------------------------------
















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|71429669|gb|DR810719.1|DR810719
EST:     ATTGCAATCTCAAGGTGGTGAACAACAGCGAGCATCATGTCGCATTCAAG                         GTCAAAACAACATCGCCGAGGAAGTATTTCGTCCGGCCGAACGCGAGCATC
genomic: ATTGCAATCTCAAGGTGGTGAACAACAGCGAGCATCATGTCGCATTCAAGgtccatgtct ... ttattttcagGTCAAAACAACATCGCCGAGGAAGTATTTCGTCCGGCCGAACGCGAGCATC
EST: gi|93012917|gb|EB638437.1|EB638437
EST:     ATTGCAATCTCAAGGTGGTGAACAACAGCGAGCATCATGTCGCATTCAAG                         GTCAAAACAACATCGCCGAGGAAGTATTTCGTCCGGCCGAACGCGAGCATC
genomic: ATTGCAATCTCAAGGTGGTGAACAACAGCGAGCATCATGTCGCATTCAAGgtccatgtct ... ttattttcagGTCAAAACAACATCGCCGAGGAAGTATTTCGTCCGGCCGAACGCGAGCATC
EST: gi|89251407|gb|DY623193.1|DY623193
EST:     ATTGCAATCTCAAGGTGGTGAACAACAGCGAGCATCATGTCGCATTCAAG                         GTCAAAACAACATCGCCGAGGAAGTATTTCGTCCGGCCGAACGCGAGCATC
genomic: ATTGCAATCTCAAGGTGGTGAACAACAGCGAGCATCATGTCGCATTCAAGgtccatgtct ... ttattttcagGTCAAAACAACATCGCCGAGGAAGTATTTCGTCCGGCCGAACGCGAGCATC