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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cgcacacaaacacatgacatgacatgacatgacacaccagacttgacgctctcctgtctttatatgccggcgcggcgcgcgggcgtgcgtgcgcgcgcagATGGCGGAGGAGGAGCAGATGGCGGAGCTGGTGATGGCGCAGTGCGGGGTGCCGAGCGGCGGTGAGGGGGGCGCGTGGCCGCCGGGATTCGCGTGGGACG

Basic information

species Zea mays
transcript GRMZM2G139372_T04
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G139372_T04 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os02g02820.1 (Oryza sativa), 3'ss of exon 5
cgcacacaaacacatgacatgacatgacatg-acacaccagacttgacgctctcctgtctttatatgccggcgcggcgcgcgggc--gtgcgtgcgcgcgcagATGGCGGAGGAGGAGCAGATGGCGGAGCTGGTGATGGCGCAGTGCGG-GGTGCCGAGCGGCGGTGAGGGGGGCGCGTGGCCGCCGGGATTCGCGTGGGACG
|    |    |  |   | ||   | |  || || || | | |||  || | |   |  |  ||  |       |    | |||    |  |||   | |||||||||||||||| |||||||||||||||| || |||||||||||||| || | || ||| ||| || |  || | | ||| | || |     ||  |||  
caacgaacgccggagagcttgcggttagctgcacgcaacggcctttgcgtttt---gcatggatgggttatatagatttgtgggttgatcggtgttggtgcagATGGCGGAGGAGCAGCAGATGGCGGAGCTTGTCATGGCGCAGTGCGGCGGCGGCG-GCGCCGGGGACGACGGTGGGGGGCAGGCGTGGCCGCCGCCGGAGA
















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|149082525|gb|EE171719.2|EE171719
EST:     TGCTGGTGCCCGTCGCCGGCGGCCTCGTCGAGCTCTTCGCGGCGAGATAC                         ATGGCGGAGGAGGAGCAGATGGCGGAGCTGGTGATGGCGCAGTGCGGGGTG
genomic: TGCTGGTGCCCGTCGCCGGCGGCCTCGTCGAGCTCTTCGCGGCGAGATACgtgcgtaagc ... gcgcgcgcagATGGCGGAGGAGGAGCAGATGGCGGAGCTGGTGATGGCGCAGTGCGGGGTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acgctctcctgtctttatatgccggcgcggcgcgcgggcgtgcgtgcgcgcgcagATGGCGGAGGAGGAGCAGATGGCGGAGCTGGTGATGGCGCAGTGCGGGGTGCCGAGCGGCGGTGAGGGGGGCGCGTGGCCGCCGGGATTCGCGTGGGACG
 acttgac  putative branch site (score: 4)
           tctttatat  TA-rich tract