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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagggcccgctttggtcgtgagtactcacaaatttgtgtggtttggggttgtgctgatgcatattttgccactctgtgcacgcagGTAGCGAGGGGTGGCGCGTCGCCTCCATGGAGGGAGGATGACCGCGACGGACACTACGTCTTCGATCTCGGCGAGAACTTGACCCGCCGAT

Basic information

species Zea mays
transcript GRMZM2G366935_T08
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G366935_T09 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g40840.1 (Oryza sativa), 3'ss of exon 1
-------------------gtagggcccgctttggtcg-tgagtactcacaaatttgtgtggtttggggttgtgctgatgcatattttgccactctgtgcacgcagGTAGCGAGGGGTGGCGCGTCGCCTCCATGGAGGGAGGATGACCGCGACGGACACTACGTCTTCGATCTCGGCGAGAACTTGACCCGCCGAT
                        | | |||||| ||| || |      |   ||  |  ||||   ||  |  |   |||  |  |||       ||||  |||||| |||||||| ||||||||||| || |||||||| || ||||||||||| |||||||| ||||| |||||||||||||||| ||| ||||
gtacgtccgtccgttcatccctctgtctgctttgctcgatgggggtggtcgggttcctagggttcatgggggctcctgtgctgacgttgtg-----gtgcttgcagGTGGCGAGGGGCGGCGCGTCGCCGCCGTGGAGGGACGACGACCGCGACGGGCACTACGTGTTCGACCTCGGCGAGAACTTGAACCGACGAT
















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|89248362|gb|DY620148.1|DY620148
EST:     CGCGCCAAGCGTATGACTGCGCCGCCGCGCTGCCACCAGAGCGAGAAGTG                         GTAGCGAGGGGTGGCGCGTCGCCTCCATGGAGGGAGGATGACCGCGACGGA
genomic: CGCGCCAAGCGTATGACTGCGCCGCCGCGCTGCCACCAGAGCGAGAAGTGgtagggcccg ... gtgcacgcagGTAGCGAGGGGTGGCGCGTCGCCTCCATGGAGGGAGGATGACCGCGACGGA
EST: gi|76915209|gb|DV165882.1|DV165882
EST:     CGCGCCAAGCGTATGACTGCGCCGCCGCGCTGCCACCAGAGCGAGAAGTG                         GTAGCGAGGGGTGGCGCGTCGCCTCCATGGAGGGAGGATGACCGCGACGGA
genomic: CGCGCCAAGCGTATGACTGCGCCGCCGCGCTGCCACCAGAGCGAGAAGTGgtagggcccg ... gtgcacgcagGTAGCGAGGGGTGGCGCGTCGCCTCCATGGAGGGAGGATGACCGCGACGGA
EST: gi|211511149|gb|FL155932.1|FL155932
EST:     CGCGCCAAGCGTATGACTGCGCCGCCGCGCTGCCACCAGAGCGAGAAGTG                         GTAGCGAGGGGTGGCGCGTCGCCTCCATGGAGGGAGGATGACCGCGACGGA
genomic: CGCGCCAAGCGTATGACTGCGCCGCCGCGCTGCCACCAGAGCGAGAAGTGgtagggcccg ... gtgcacgcagGTAGCGAGGGGTGGCGCGTCGCCTCCATGGAGGGAGGATGACCGCGACGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatttgtgtggtttggggttgtgctgatgcatattttgccactctgtgcacgcagGTAGCGAGGGGTGGCGCGTCGCCTCCATGGAGGGAGGATGACCGCGACGGACACTACGTCTTCGATCTCGGCGAGAACTTGACCCGCCGAT
                     tgctgat  putative branch site (score: 3)
                              atatttt  TA-rich tract