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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttactatttagtagatcaaatatattttgattgcttcttttcaaaatcaaaggtggtgcttatgattaccatattcagGTGAAGCAAATGCATTTAATTGCACCACTGGACAAACAATTCTCCAACCTATATGGTCTTCTAACTGATCATATTTCTGAAAATGTTGACTACAAG

Basic information

species Zea mays
transcript GRMZM2G041732_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G041732_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os06g33520.1 (Oryza sativa), 3'ss of exon 6
-----------------------------gtatttactatttagtagatcaaatatattttgat------tgcttcttttcaaaatcaaa----ggtggtgcttatgattaccatattcagGTGAAGCAAATGCATTTAATTGCACCACTGGACAAACAATTCTCCAACCTATATGGTCTTCTAACTGATCATATTTCTGAAAATGTTGACTACAAG
                             || ||| |   ||   || |   ||| ||||||||      || | | |||    | ||       | |     | |  |||||||||||||||||||||||||||| || |||||||||| |||||||| || || | ||| |||||||||||||||||||||||||| ||||||||||||||||||
gtattttttaaagcatatgcatgctgactgtttttccagattccaagtttctataaattttgatcagacatgttaccttttgttaccatgtttttgagcaatcttttgttaccatattcagGTGAAGCAAATGCATGTAGTTGCACCACTAGACAAACAGTTTTCTATCCTGTATGGTCTTCTAACTGATCATATTTCAGAAAATGTTGACTACAAG
















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|211278717|gb|FL386602.1|FL386602
EST:     TTGAATTCGTCAACACTGTTCAAGAAGGAAGTGAGGAAACACACTCTCAG                         GTGAAGCAAATGCATTTAATTGCACCACTGGACAAACAATTCTCCAACCTA
genomic: TTGAATTCGTCAACACTGTTCAAGAAGGAAGTGAGGAAACACACTCTCAGgtatttacta ... ccatattcagGTGAAGCAAATGCATTTAATTGCACCACTGGACAAACAATTCTCCAACCTA
EST: gi|211084951|gb|FL398639.1|FL398639
EST:     GAATTCGTCAACACTGTTCAAGAAGGAAGTGAGGAAACACACYCTCAG                         GTGAAGCAAATGCATTTAATTGCACCACTGGACAAACAATTCTCCAACCTA
genomic: GAATTCGTCAACACTGTTCAAGAAGGAAGTGAGGAAACACACTCTCAGgtatttacta ... ccatattcagGTGAAGCAAATGCATTTAATTGCACCACTGGACAAACAATTCTCCAACCTA
EST: gi|32943805|gb|CF048624.1|CF048624
EST:     TTGAATTCGTCAACACTGTTCAAGAAGGAAGTGAGGAAACACACTCTCAG                         GTGAAGCAAATGCATTTAATTGCACCACTGGACAAACAATTCTCCAACCTA
genomic: TTGAATTCGTCAACACTGTTCAAGAAGGAAGTGAGGAAACACACTCTCAGgtatttacta ... ccatattcagGTGAAGCAAATGCATTTAATTGCACCACTGGACAAACAATTCTCCAACCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attttgattgcttcttttcaaaatcaaaggtggtgcttatgattaccatattcagGTGAAGCAAATGCATTTAATTGCACCACTGGACAAACAATTCTCCAACCTATATGGTCTTCTAACTGATCATATTTCTGAAAATGTTGACTACAAG
 ttttgat  putative branch site (score: 4)
              ttttcaaaatcaaa  TA-rich tract