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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...nnnnnnnnnnnnnnnnnnnnnnnnnnnntgcttccataaagtgttcctcattgtgctgcaatgtcttttgctccctgacatttttaatatgtcattgtagACCTGGATTCGTGTCCTCTTAAAGAAACCTAAGAAGAAATGCACTCAAAATGGATGTTCCAGAAAAGATTCTTTCACAAGCACACGGAAAAGTACGAACA

Basic information

species Zea mays
transcript GRMZM2G051138_T01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G051138_T01 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os03g13850.1 (Oryza sativa), 3'ss of exon 8
nnnnnnnnnnnnnnnnnnnnnnnnnnnntgcttccataaagtgttcctcattgtgctgcaatgtct---tttgctc--cctgacatttttaatatgtca-ttgtagACCTGGATTCGTGTCCTCTTAAAGAAAC-CTAAGAAGAAATGCACTCAAAATGGATGTTCCAGAAAAGATTCTTTCACAAGCACACGGAAAAGTACGAACA
                            ||| | ||      |||  | |   |  || |    ||   |||| |    |||| | || | |||  |||  ||||||  ||||||||| |||| | |||||||  |||||||||||| |||||||||||||| ||||||||||| |||| || ||||| || ||||||||       
ttatagaatgcaatgctgtgattctgaatgcctgcaagggtggtttattaaatttatgaatgacctagctttgttgtgtctgaaacttgtgatacttcagCTGTAGATGTGGATTCGTTTCCTATGAAAGAAAAACTAAGAAGAAATCCACTCAAAATGGATATTCCAGAAAAGGTTCTGTCTCAAGCGCATGGAAAAGT-------
















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|78079476|gb|DV507888.1|DV507888
EST:     GGGGAAATTTTTGCACAACAAGAGGGAAACTAATAGTGATGCTGATATCG                         ACCTGGATTCGTTTCCTCTTAAAGAAAACCTAAGAAGAAATGCACTCAAAA
genomic: GGGGAAATTTTTGCACAACAAGAGGGAAACTAATAGTGATGCTGATATCGgtatgtaaga ... gtcattgtagACCTGGATTCGTGTCCTCTTAAAG-AAACCTAAGAAGAAATGCACTCAAAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctcattgtgctgcaatgtcttttgctccctgacatttttaatatgtcattgtagACCTGGATTCGTGTCCTCTTAAAGAAACCTAAGAAGAAATGCACTCAAAATGGATGTTCCAGAAAAGATTCTTTCACAAGCACACGGAAAAGTACGAACA
                                    ttttaat  putative branch site (score: 3)
                                  atttttaatatgtcat  TA-rich tract