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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgtttaaaacttatcttgctcttagtctcagttgatgattaagtcttccgctgaagtagtgaggttgtttgtatgacaattgcagGTGCAGGATTGGTTATATATGGACGGTGAAGATGCTCAAGCTAATGAATTCAAAGAGCGTCTTGACCAACTTAAAGCCATTGGTGACCCAATTCTTTTCA

Basic information

species Zea mays
transcript GRMZM2G020040_T01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G020040_T01 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os02g48110.1 (Oryza sativa), 3'ss of exon 8
-gttgtttaaaacttatcttgctcttagtctcagttgatgattaagtcttccgctgaagtagtgaggttgtttgtatgacaattgcagGTGCAGGATTGGTTATATATGGACGGTGAAGATGCTCAAGCTAATGAATTCAAAGAGCGTCTTGACCAACTTAAAGCCATTGGTGACCCAATTCTTTTCA
   |||| || | | |||||    |  || ||| |||    || | || ||        |  |||| ||||||       || ||||||| || |||||||| |||||||| ||||||||||||||||| ||||||||||| || || |||||||||||||| ||||| |||||||||||||||||||
gtctgttcaataataatcttctggtgggtttcatttgtctgttgaatcctc-------atgctgagattgttt-------aagtgcagGTACAAGATTGGTTGTATATGGATGGTGAAGATGCTCAAGCAAATGAATTCAAGGAACGCCTTGACCAACTTAAGGCCATCGGTGACCCAATTCTTTTCA
















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|26557797|gb|CA830032.1|CA830032
EST:     CTGTCTCAACTGAACAGGAGAGGGAATCCTTTGCTGAGAAACTTAGTGAG                         GTGCAGGATTGGTTATATATGGACGGTGAAGATGCTCAAGCTAATGAATTC
genomic: CTGTCTCAACTGAACAGGAGAGGGAATCCTTTGCTGAGAAACTTAGTGAGgttgtttaaa ... acaattgcagGTGCAGGATTGGTTATATATGGACGGTGAAGATGCTCAAGCTAATGAATTC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttgatgattaagtcttccgctgaagtagtgaggttgtttgtatgacaattgcagGTGCAGGATTGGTTATATATGGACGGTGAAGATGCTCAAGCTAATGAATTCAAAGAGCGTCTTGACCAACTTAAAGCCATTGGTGACCCAATTCTTTTCA
 agttgat  putative branch site (score: 5)
     tgattaa  TA-rich tract