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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgcctcttactcctgttggaagtttggctttgtaaaattttctatccgcatgtgtttgacacttgccttggaatagGATTGCAAACCAACAGAGAAAGGTGGGATATACTATGAGTTTAGACGAAATACTAGATCGGTTAAATCAACTATTCTACATTTTCAG

Basic information

species Zea mays
transcript GRMZM2G109039_T03
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G109039_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g48964.1 (Oryza sativa), 3'ss of exon 3
gtttgcctcttactcctgttggaagtttggctttgtaaaattttctatccgcatgtgtttgacacttg---ccttggaatagGATTGCAAACCAACAGAGAAAGGTGGGATATACTATGAGTTTAGACGAAATACTAGATCGGTTAAATCAACTATTCTACATTTTCAG
         |   |||| ||| ||| |   || |||| || | ||| |  |  |||| |||||| |||   | |  | | |||| |||||||| || || ||||| ||||| || ||||| ||||| |||||||||||||| || ||||||||||| ||||||||||||
--------gtgcgtccttttgaaagctca-ctgtgtagaactgtctgt--gtttgtgcttgacagttgacacttgtgtacagGAATGCAAACCGACTGAAAAAGGCGGGATGTATTATGAATTTAGGCGAAATACTAGATCAGTAAAATCAACTATACTACATTTTCAG
















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|211166255|gb|FL395975.1|FL395975
EST:     AGTACAAAAATTATGAGAATGTACCTAACTCTGGAGAAGAAGCTATGAAG                         GATTGCAAACCAACAGAGAAAGGTGGGATATACTATGAGTTTAGACGAAAT
genomic: AGTACAAAAATTATGAGAATGTACCTAACTCTGGAGAAGAAGCTATGAAGgtttgcctct ... cttggaatagGATTGCAAACCAACAGAGAAAGGTGGGATATACTATGAGTTTAGACGAAAT
EST: gi|211150113|gb|FL386529.1|FL386529
EST:     AGTACAAAAATTATGAGAATGTACCTAACTCTGGAGAAGAAGCTATGAAG                         GATTGCAAACCAACAGAGAAAGGTGGGATATACTATGAGTTTAGACGAAAT
genomic: AGTACAAAAATTATGAGAATGTACCTAACTCTGGAGAAGAAGCTATGAAGgtttgcctct ... cttggaatagGATTGCAAACCAACAGAGAAAGGTGGGATATACTATGAGTTTAGACGAAAT
EST: gi|60342865|gb|DN209838.1|DN209838
EST:     AGTACAAAAATTATGAGAATGTACCTAACTCTGGAGAAGAAGCTATGAAG                         GATTGCAAACCAACAGAGAAAGGTGGGATATACTATGAGTTTAGACGAAAT
genomic: AGTACAAAAATTATGAGAATGTACCTAACTCTGGAGAAGAAGCTATGAAGgtttgcctct ... cttggaatagGATTGCAAACCAACAGAGAAAGGTGGGATATACTATGAGTTTAGACGAAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttggctttgtaaaattttctatccgcatgtgtttgacacttgccttggaatagGATTGCAAACCAACAGAGAAAGGTGGGATATACTATGAGTTTAGACGAAATACTAGATCGGTTAAATCAACTATTCTACATTTTCAG
                                gtttgac  putative branch site (score: 4)
                                        cttgcctt  CT-rich tract
       tttgtaaaattttcta  TA-rich tract