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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttgaatagattttgagtttcattctgtgctaactgattttgacacatttccattttttgtactgatatgctgttttcctcatattgattcgtaactcacattcaaacttttattttgttcctttagAAATCTTTCATCAAATTTCATAAGTGGCTCTATTCCTATTGAGCTATCAAGGATCAACAATTTGGACACGTT

Basic information

species Zea mays
transcript GRMZM5G809695_T02
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G809695_T03 (Zea mays), 3'ss of exon 15
lower sequence: LOC_Os06g10230.1 (Oryza sativa), 3'ss of exon 16
gtaagtttgaatagattttgagtttcattctgtgctaactgattttgacacatttccattttttgtactgatatg----ctgttttcctcata--------ttgattcgtaactcacatt-----caaacttttatt--ttgttcctttagAAATCTTTCATCAAATTTCATAAGTGGCTCTATTCCTATTGAGCTATCAAGGATCAACAATTTGGACACGTT
|||||||  || |  |||    | | |   |||| |     ||| |    | |||  |  || | ||||  | |      ||| || | ||||        ||| |||  |  |   |||     || |  || ||   || ||   |||| ||| | |||||||||||  ||||||| |||||||||||||||||||| || ||||||||||||||||| ||
gtaagttgtaacaattttaatttcttaaattgtgttgttacattatttttccttttgaacttctatacttgtttaatttttgtatttcacatagaaaaaccttgtttcccatgtttgattagtaccatatgttcatctgttcttttcttagGAATTTGTCATCAAATTTTCTAAGTGGTTCTATTCCTATTGAGCTATCGAGAATCAACAATTTGGACACCTT
















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|31405872|gb|CD484604.1|CD484604
EST:     AATGGAACCATTCCTCGTTCGCTGCGGAAACTTGAAAGCATGACCTATTT                         AAATCTTTCATCAAATTTCATAAGTGGCTCTATTCCTATTGAGCTATCAAG
genomic: AATGGAACCATTCCTCGTTCGCTGCGGAAACTTGAAAGCATGACCTATTTgtaagtttga ... gttcctttagAAATCTTTCATCAAATTTCATAAGTGGCTCTATTCCTATTGAGCTATCAAG
EST: gi|211505743|gb|FL354866.1|FL354866
EST:     AATGGAACCATTCCTCGTTCGCTGCGGAAACTTGAAAGCATGACCTATTT                         AAATCTCTCGTCAAATTTCATAAGTGGCTCTATTCCTATTGAGCTATCGAG
genomic: AATGGAACCATTCCTCGTTCGCTGCGGAAACTTGAAAGCATGACCTATTTgtaagtttga ... gttcctttagAAATCTTTCATCAAATTTCATAAGTGGCTCTATTCCTATTGAGCTATCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttttcctcatattgattcgtaactcacattcaaacttttattttgttcctttagAAATCTTTCATCAAATTTCATAAGTGGCTCTATTCCTATTGAGCTATCAAGGATCAACAATTTGGACACGTT
                     aactcac  putative branch site (score: 2)
                                   cttttattttgttcct  putative PPT
                            attcaaacttttattt  TA-rich tract