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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgactggcaaaaaaaaaaaactccagattattcagttctctctacgcaccaaattcatgatcttggcgagtttaagcgtacctgatctctgcatttcggttgtttcgcagTATCTGAAGAACATACAGATAAAAGAAATCCCCATACTGGAAAGGTTCTCCCTTTTCATCTGTGTCGCGTTGGTATGGGCGTACGCTCAGATCCTCACTT

Basic information

species Zea mays
transcript GRMZM2G437859_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G437859_T03 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os01g55500.4 (Oryza sativa), 3'ss of exon 6
gtctgactggcaaaaaaaaaaaactccagattattcagttctct--ctacgcaccaaattcatgatcttggcgagtttaagcgtacctgatctctgcatttcggttgtttcgcagTATCTGAAGAACATACAGATAAAAGAAATCCCCATACTGGAAAGGTTCTCCCTTTTCATCTGTGTCGCGTTGGTATGGGCGTACGCTCAGATCCTCACTT
    |  ||||||  ||      ||||| || ||  | |||| |  |||   |||| |||     |   | | |  |   || |     ||              |||||  ||||||||||||||  ||||||||| ||| || || |||||||| ||||||||||| ||||||||  |||||||||| ||||| || ||||| ||||||||| 
----gtttggcaagcaa------ctcca-atgatcgaattcttttgctagtgaccatatttgaagttgagtctaactcgtgcattgtcaatta------------tgtttttcagTATCTGAAGAATGTACAGATAAGAGATATTCCAATACTGGAGAGGTTCTCCCTGTTCATCTGCATCGCGTTGGTTTGGGCCTATGCTCAAATCCTCACTG
















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|211379070|gb|FL028411.1|FL028411
EST:     GTTGAGATTGGCCTGCCAATGCTGATCCTCTTTGTCGTGCTGTCTCAG                         TATCTGAAGAACATACAGATAAAAGGAATCCCCATACTGGAAAGGTTCTCC
genomic: GTTGAGATTGGCCTGCCAATGCTGATCCTCTTTGTCGTGCTGTCTCAGgtctgactgg ... tgtttcgcagTATCTGAAGAACATACAGATAAAAGAAATCCCCATACTGGAAAGGTTCTCC
EST: gi|211238715|gb|FL406520.1|FL406520
EST:     GCGTTGAGATTGGCCTGCCAATGCTGATCCTCTTTGTCGTGCTGTCTCAG                         TATCTGAAGAACATACAGATAAAAGGAATCCCCATACTGGAAAGGTTCTCC
genomic: GCGTTGAGATTGGCCTGCCAATGCTGATCCTCTTTGTCGTGCTGTCTCAGgtctgactgg ... tgtttcgcagTATCTGAAGAACATACAGATAAAAGAAATCCCCATACTGGAAAGGTTCTCC
EST: gi|74238881|gb|DT646795.1|DT646795
EST:     CGTGCTGTCTCAG                         TATCTGAAGAACATACAGATAAAAGAAATCCCCATACTGGAAAGGTTCTCC
genomic: CGTGCTGTCTCAGgtctgactgg ... tgtttcgcagTATCTGAAGAACATACAGATAAAAGAAATCCCCATACTGGAAAGGTTCTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catgatcttggcgagtttaagcgtacctgatctctgcatttcggttgtttcgcagTATCTGAAGAACATACAGATAAAAGAAATCCCCATACTGGAAAGGTTCTCCCTTTTCATCTGTGTCGCGTTGGTATGGGCGTACGCTCAGATCCTCACTT
                        acctgat  putative branch site (score: 4)
                                            ttgtttc  putative PPT
             agtttaa  TA-rich tract