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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_T01
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|148983054|gb|EE028963.2|EE028963
EST:     CGCGCCAAGCGTATGACTGCGCCGCCGCGCTGCCACCAGAGCGAGAAGTG                         GTAGCGAGGGGTGGCGCGTCGCCTCCATGGAGGGAGGATGACCGCGACGGA
genomic: CGCGCCAAGCGTATGACTGCGCCGCCGCGCTGCCACCAGAGCGAGAAGTGgtagggcccg ... gtgcacgcagGTAGCGAGGGGTGGCGCGTCGCCTCCATGGAGGGAGGATGACCGCGACGGA
EST: gi|211042609|gb|FL405101.1|FL405101
EST:     CGCGCCAAGCGTATGACTGCGCCGCCGCGCTGCCACCAGAGCGAGAAGTG                         GTAGCGAGGGGTGGCGCGTCGCCTCCATGGAGGGAGGATGACCGCGACGGA
genomic: CGCGCCAAGCGTATGACTGCGCCGCCGCGCTGCCACCAGAGCGAGAAGTGgtagggcccg ... gtgcacgcagGTAGCGAGGGGTGGCGCGTCGCCTCCATGGAGGGAGGATGACCGCGACGGA
EST: gi|93015243|gb|EB640763.1|EB640763
EST:     CGCGCCAAGCGTATGACTGCGCCGCCGCGCTGCCACCAGAGCGAGAAGTG                         GTAGCGAGGGGTGGCGCGTCGCCTCCATGGAGGGAGGATGACCGCGACGGA
genomic: CGCGCCAAGCGTATGACTGCGCCGCCGCGCTGCCACCAGAGCGAGAAGTGgtagggcccg ... gtgcacgcagGTAGCGAGGGGTGGCGCGTCGCCTCCATGGAGGGAGGATGACCGCGACGGA
EST: gi|211045786|gb|FL411675.1|FL411675
EST:     CGCGCCAAGCGTATGACTGCGCCGCCGCGCTGCCACCAGAGCGAGAAGTG                         GTAGCGAGGGGTGGCGCGTCGCCTCCATGGAGGGAGGATGACCGCGACGGA
genomic: CGCGCCAAGCGTATGACTGCGCCGCCGCGCTGCCACCAGAGCGAGAAGTGgtagggcccg ... gtgcacgcagGTAGCGAGGGGTGGCGCGTCGCCTCCATGGAGGGAGGATGACCGCGACGGA
EST: gi|211070907|gb|FL383766.1|FL383766
EST:     CGCGCCAAGCGTATGACTGCGCCGCCGCGCTGCCACCAGAGCGAGAAGTG                         GTAGCGAGGGGTGGCGCGTCGCCTCCATGGAGGGAGGATGACCGCGACGGA
genomic: CGCGCCAAGCGTATGACTGCGCCGCCGCGCTGCCACCAGAGCGAGAAGTGgtagggcccg ... gtgcacgcagGTAGCGAGGGGTGGCGCGTCGCCTCCATGGAGGGAGGATGACCGCGACGGA
EST: gi|149000442|gb|EE037616.2|EE037616
EST:     CGCGCCAAGCGTATGACTGCGCCGCCGCGCTGCCACCAGAGCGAGAAGTG                         GTAGCGAGGGGTGGCGCGTCGCCTCCATGGAGGGAGGATGACCGCGACGGA
genomic: CGCGCCAAGCGTATGACTGCGCCGCCGCGCTGCCACCAGAGCGAGAAGTGgtagggcccg ... gtgcacgcagGTAGCGAGGGGTGGCGCGTCGCCTCCATGGAGGGAGGATGACCGCGACGGA
EST: gi|211340986|gb|FL379602.1|FL379602
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