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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagatcaccttctcctcttattacattatattgttctctattattcatggtcatatcatcactagtaatagaccgcggacagcttgcatatattatttccttgggttaaagcttagtggaccaggtgactagagcaggcatgtagtttgatgtgtgcacctcattgtttttttttcagACCATCGCAGCTATAGGTGGTATGGCATATTTTTTGGACAAAGACGGAAACTTCAGAAACAAATTTTCTGATGATTGGGAACGGTTTCTGTCAAAGCATC

Basic information

species Zea mays
transcript GRMZM2G034536_T02
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G034536_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g42500.1 (Oryza sativa), 3'ss of exon 3
gtgagatcaccttctcctcttattacattatattgttctctattattcatggtcatatcatcactagtaatagaccgcggacagcttgcatatattatttccttgggttaaagcttagtggacc-aggtgactaga-----gcag------gcatgtagtttgatgt------gtgcacctcat-tgtttt-tttttcagACCATCGCAGCTATAGGTGGTATGGCATATTTTTTGGACAAAGACGGAAACTTCAGAAACAAATTTTCTGATGATTGGGAACGGTTTCTGTCAAAGCATC
|| ||| ||||||    ||| ||| |      ||||| | | | |||||     ||     | ||| |||   ||   | | ||  ||||||||||||||| || | | ||| ||  ||| |||   || |||| |     |||       |  | | || || ||        | |   | || ||  ||  |||||||  ||| || ||||| ||||||||||| ||| | ||||| ||||| ||| | || |||||||  |||||||||| ||||||||   | || ||||| ||||
gtaagaacacctttctttctaattgctc---gttgttgtttctcattcacatgtatgctggctctattaa---acacagaaaagactgcatatattatttcttttgttgaaacctctgtgaacctgagttactacaattttgcaccgttctgtttttggtatggtgctctgacatactttttatctgccttgcttttcagGTCATTGCTGCTATCGGTGGTATGGCTTATCTGTTGGATAAAGATGGACAATTTAGAAACAGTTTTTCTGATGGTTGGGAACACATCCTATCAAATCATC
















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|101385086|gb|EB814588.1|EB814588
EST:     GGATGTTCGTTGCAAGAGATGTTATCATTATATTCCTTCCTATACAAGCC                         ACCATCGCAGCTATAGGTGGTATGGCATATTTTTTGGACAAAGACGGAAAC
genomic: GGATGTTCGTTGCAAGAGATGTTATCATTATATTCCTTCTTATACAAGCCgtgagatcac ... tttttttcagACCATCGCAGCTATAGGTGGTATGGCATATTTTTTGGACAAAGACGGAAAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtgactagagcaggcatgtagtttgatgtgtgcacctcattgtttttttttcagACCATCGCAGCTATAGGTGGTATGGCATATTTTTTGGACAAAGACGGAAACTTCAGAAACAAATTTTCTGATGATTGGGAACGGTTTCTGTCAAAGCATC
                     gtttgat  putative branch site (score: 5)
                                   cctcattgtttttttt  putative PPT
                                     tcattgttttttttt  TA-rich tract