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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtgatggactaatactatttgactttgtagcccacatttttgtttactccagtctttattttttggttctcactcttgaattgtcttttgcatgtgaagCCTGGTTGCTCAAGTGAATTTTCTGGAATTGAATTTGGAGAAGCACAACTTGTCCAAATCAAGGTAGTATTAATGACAGGTTGCTCTTTGCTTTTGTTCT

Basic information

species Zea mays
transcript GRMZM5G869482_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G869482_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g45770.2 (Oryza sativa), 3'ss of exon 1
-tgtgatggactaatactatttgactttgtagcccacatttttgtttactccagtctttattttttggttctcactcttgaattgtcttttgcatgtgaagCCTGGTTGCTCAAGTGAATTTTCTGGAATTGAATTTGGAGAAGCACAACTTGTCCAAATCAAGGTAGTATTAATGACAGGTTGCTCTTTGCTTTTGTTCT
   |  |   ||  |  | | |   |   |  ||    ||      || || ||| |  || | | |  || ||   |||| ||  ||||| |||||||||||||| || ||||| || |||||||| ||||||||||| ||||| ||||||||||||||||||                                     
acctttttatctggttgtttctttttcctttacct-tgttccataatagtctagtgtgcatatgtagcctcacaactttgagttacctttttcatgtgaagCCTGGCTGTTCAAGCGAGTTTTCTGGGATTGAATTTGGTGAAGCGCAACTTGTCCAAATCAAG-------------------------------------
















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|89763719|gb|DY690800.1|DY690800
EST:     TCGCGCTCTTCTGCCTGCTCGTCGTCATGCACACAAACTTCTTGCAGCAG                         CCTGGTTGCTCAAGTGAATTTTCTGGAATTGAATTTGGA
genomic: TCGCGCTCTTCTGCCTGCTCGTCGTCATGCACACGAACTTCGTGCAGCAGgtcagtcacg ... gcatgtgaagCCTGGTTGCTCAAGTGAATTTTCTGGAATTGAATTTGGA
EST: gi|32828396|gb|CD968074.1|CD968074
EST:     TCGCGCTCTTCTGCCTGCTCGTCGTCATGCACACGAACTTCGTGCAGCAG                         CCTGGTTGCTCAAGTGAATTTTCTGGAATTGAATTTGGAGAAGCACAACTT
genomic: TCGCGCTCTTCTGCCTGCTCGTCGTCATGCACACGAACTTCGTGCAGCAGgtcagtcacg ... gcatgtgaagCCTGGTTGCTCAAGTGAATTTTCTGGAATTGAATTTGGAGAAGCACAACTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tactccagtctttattttttggttctcactcttgaattgtcttttgcatgtgaagCCTGGTTGCTCAAGTGAATTTTCTGGAATTGAATTTGGAGAAGCACAACTTGTCCAAATCAAGGTAGTATTAATGACAGGTTGCTCTTTGCTTTTGTTCT
                      ttctcac  putative branch site (score: 2)
                                       tcttttgc  putative PPT
      agtctttatttttt  TA-rich tract