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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagactcctgtcattcatcaccttgacaaatcttattgtccaaagtcgtttgtaattgatctgtgttgtaacatcatgcagGAATATCTACAACGAGAAAGGCAAGGGTCTGCTCGTCTAGAGAATTTTGCTTCTGCACTCGAACTGATTGGACAAAAG

Basic information

species Zea mays
transcript GRMZM2G052750_T01
intron # 18
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G052750_T02 (Zea mays), 3'ss of exon 18
lower sequence: LOC_Os02g54500.1 (Oryza sativa), 3'ss of exon 18
gtgagactcctgtcattcatcaccttgacaaatcttattg-tccaaagtcgtttgtaattgatctgtgttgtaacatcatgcagGAATATCTACAACGAGAAAGGCAAGGGTCTGCTCGTCTAGAGAATTTTGCTTCTGCACTCGAACTGATTGGACAAAAG
|| ||| |       ||||||| | | || | |||| ||| ||||||  |   ||| ||| || | | || |||| | |||||||||||||| || |||||||||| |||||||||||| |||||||||||||| |||||||| ||||||||||||||||||
gtaagattttcactgttcatcatcattaccagtcttgttgatccaaaaccacatgttattaatatat-ttataactttatgcagGAATATCTTCAGCGAGAAAGGCTAGGGTCTGCTCGACTAGAGAATTTTGCATCTGCACTTGAACTGATTGGACAAAAG
















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|87152673|gb|DY397462.1|DY397462
EST:     AGCTTTCTAAACTCGTTGCTTTTGTCAAGGGGACTCAATTTGATCTTGTG                         GAATATCTACAACGAGAAAGGCAAGGGTCTGCTCGTCTAGAGAATTTTGCT
genomic: AGCTTTCTAAACTCGTTGCTTTTGTCAAGGGGACTCAATTTGATCTTGTGgtgagactcc ... catcatgcagGAATATCTACAACGAGAAAGGCAAGGGTCTGCTCGTCTAGAGAATTTTGCT
EST: gi|211446884|gb|FL341663.1|FL341663
EST:     TGTCAAGGGGACTCAATTTGATCTTGTG                         GAATATCTACAACGAGAAAGGCAAGGGTCTGCTCGTCTAGAGAATTTTGCT
genomic: TGTCAAGGGGACTCAATTTGATCTTGTGgtgagactcc ... catcatgcagGAATATCTACAACGAGAAAGGCAAGGGTCTGCTCGTCTAGAGAATTTTGCT
EST: gi|211446492|gb|FK979151.1|FK979151
EST:     TGTCAAGGGGACTCAATTTGATCTTGTG                         GAATATCTACAACGAGAAAGGCAAGGGTCTGCTCGTCTAGAGAATTTTGCT
genomic: TGTCAAGGGGACTCAATTTGATCTTGTGgtgagactcc ... catcatgcagGAATATCTACAACGAGAAAGGCAAGGGTCTGCTCGTCTAGAGAATTTTGCT
EST: gi|211253319|gb|FL352230.1|FL352230
EST:     TGTCAAGGGGACTCAATTTGATCTTGTG                         GAATATCTACAACGAGAAAGGCAAGGGTCTGCTCGTCTAGAGAATTTTGCT
genomic: TGTCAAGGGGACTCAATTTGATCTTGTGgtgagactcc ... catcatgcagGAATATCTACAACGAGAAAGGCAAGGGTCTGCTCGTCTAGAGAATTTTGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caaatcttattgtccaaagtcgtttgtaattgatctgtgttgtaacatcatgcagGAATATCTACAACGAGAAAGGCAAGGGTCTGCTCGTCTAGAGAATTTTGCTTCTGCACTCGAACTGATTGGACAAAAG
                                       ttgtaac  putative branch site (score: 2)
                      tttgtaatt  TA-rich tract