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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatattttgtcccttcctcttggttattgcattagttgtacttaacttattttttggattcagaatgtttattgctgcagctaaaaaagctattgtcttttgacctaaatattggctgcctctgatggatgcgctagttcttttttcgtattgattttgtattggtttttggcagATATGTAGAGCATTGGCTTACATTCATGGTACTATCGGTGTCTGCCACAGAGATATTAAGCCACAAAATCTTCTG

Basic information

species Zea mays
transcript GRMZM5G835235_T04
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G835235_T04 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os01g14860.1 (Oryza sativa), 3'ss of exon 5
gtaatattttgtcccttcctcttggttattgcattagttgtacttaacttattttttggattcagaatgtttattgctgcagctaaaaaagctattgtcttttgacctaaatattggctgcctctgatggatgcgctagttcttttttcgtattgattttgtattggtttttggcagATATGTAGAGCATTGGCTTACATTCATGGTACTATCGGTGTCTGCCACAGAGATATTAAGCCACAAAATCTTCTG
|||||||| |||    | |  ||     ||| ||           |  || || ||| || | |       | ||| || |||     | |||||  ||     | |||   | | ||   |   ||||                 || | ||| | |||| | |  || ||| ||||| ||||| ||||| |||||||| |||  ||  ||||| || |||||||||||||| |||||||| |||||||||
gtaatattctgttatgtaccttt-----ttggat-----------actttgttcttttgactta-------tgttg-tgtagc-----aggctatattcagacaaactagccagtagcataccgagatga---------------ctttgaatttagtttgaaat--ttgttgacagATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTTTGCCACAGAGATATCAAGCCACAGAATCTTCTG
















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|67039601|gb|CO465856.1|CO465856
EST:     AGATGCACCAACGCATGCCACTTATTTATGTGAAGCTTTATATGTACCAG                         ATATGTAGAGCATTGGCTTACATTCATGGTACAATCGGTGTCTGCCACAGA
genomic: AGATGCACCAACGCATGCCACTTATTTATGTGAAGCTTTATATGTACCAGgtaatatttt ... tttttggcagATATGTAGAGCATTGGCTTACATTCATGGTACTATCGGTGTCTGCCACAGA
EST: gi|32865481|gb|CF005163.1|CF005163
EST:     GCACCAACGCATGCCACTTATTTATGTGAAGCTTTATATGTACCAG                         ATATGTAGAGCATTGGCTTACATTCATGGGACTATCGGGGTCTGCCACAGA
genomic: GCACCAACGCATGCCACTTATTTATGTGAAGCTTTATATGTACCAGgtaatatttt ... tttttggcagATATGTAGAGCATTGGCTTACATTCATGGTACTATCGGTGTCTGCCACAGA
EST: gi|32865499|gb|CF005181.1|CF005181
EST:     GCACCAACGCATGCCACTTATTTATGTGAAGCTTTATATGTACCAG                         ATATGTAGAGCATTGGCTTACATTCATGGTACTATCGGTGTCTGCCACAGA
genomic: GCACCAACGCATGCCACTTATTTATGTGAAGCTTTATATGTACCAGgtaatatttt ... tttttggcagATATGTAGAGCATTGGCTTACATTCATGGTACTATCGGTGTCTGCCACAGA
EST: gi|166413835|gb|EG065949.1|EG065949
EST:     AGATGCACCAACGCATGCCACTTATTTATGTGAAGCTTTATATGTACCAG                         ATATGTAGAGCATTGGCTTACATTC
genomic: AGATGCACCAACGCATGCCACTTATTTATGTGAAGCTTTATATGTACCAGgtaatatttt ... tttttggcagATATGTAGAGCATTGGCTTACATTC
EST: gi|211480778|gb|FL342573.1|FL342573
EST:     AGATGCACCAACGCATGCCACTTATTTATGTGAAGCTTTATATGTACCAG                         ATATGTAGAGCATTGGCTTACATTCATGGTACTATCGGTGTCTGCCACAGA
genomic: AGATGCACCAACGCATGCCACTTATTTATGTGAAGCTTTATATGTACCAGgtaatatttt ... tttttggcagATATGTAGAGCATTGGCTTACATTCATGGTACTATCGGTGTCTGCCACAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgatggatgcgctagttcttttttcgtattgattttgtattggtttttggcagATATGTAGAGCATTGGCTTACATTCATGGTACTATCGGTGTCTGCCACAGAGATATTAAGCCACAAAATCTTCTG
                            tattgat  putative branch site (score: 3)
                                             ttttt  putative PPT
                            tattgattttgtatt  TA-rich tract