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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gccttctttgaaacagacatttcacattctggttggaacactcttgctttgatactccacttgtttttcaacactcaggagtcttctctgtccatttcagGTGTTAAACAAAATGGAAGTGTATCACATTTCTTCCACAGAACATTTAAGGCTTACAACACTGGGACTAGGAAGCGTCGAAGGATAAACACTGACGATGC

Basic information

species Zea mays
transcript GRMZM2G027309_T02
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G027309_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os06g15690.1 (Oryza sativa), 3'ss of exon 3
gccttctttgaaacagacatttcacattctggttggaacactcttgctttg-atactccacttgtttttc-------aacactcaggagtcttctctgtccatttcagGTGTTAAACAAAATGGAAGTGTATCACATTTCTTCCACAGAACATTTAAGGCTTACAACACTGGGACTAGGAAGCGTCGAAGGATAAACACTGACGATGC
        ||| | ||  || |||  ||||   ||||| | | ||| |||   |||  |  |||| || |       |    |||   | ||| | | ||  |||||||||| || ||| ||||||| |||||||| || ||||| |||||||||||||| || || ||||| |  || ||||| || | |||||||||||  |||  
--------tgacataggaatctcagtttctaactggaaaattgttgttttttgtacctctgttgtattgcttgtggtattcttcaactgacttttttttctttttcagGTGTCAAGCAAGATGGAAGCGTATCACACTTTTTCCATAGAACATTTAAGGCCTATAATACTGGAATAAGAAAGCGCCGGAAGATAAACACTGGTGATCT
















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|89759965|gb|DY688605.1|DY688605
EST:     AGTTGAGGAAGATGAAGGCATCTGTTACACTCATCCACAGAAACTTCCAG                         GTGTTAAACAAAATGGAAGTGTATCACATTTCTTCCACAGAACATTTAAGG
genomic: AGTTGAGGAAGATGAAGGCATCTGTTACACTCATCCACAGAAACTTCCAGgtataatctt ... tccatttcagGTGTTAAACAAAATGGAAGTGTATCACATTTCTTCCACAGAACATTTAAGG
EST: gi|76018321|gb|DT945491.1|DT945491
EST:     AGTTGAGGAAGATGAAGGCATCTGTTACACTCATCCACAGAAACTTCCAG                         GTGTTAAACAAAATGGAAGTGTATCACATTTCTTCCACAGAACATTTAAGG
genomic: AGTTGAGGAAGATGAAGGCATCTGTTACACTCATCCACAGAAACTTCCAGgtataatctt ... tccatttcagGTGTTAAACAAAATGGAAGTGTATCACATTTCTTCCACAGAACATTTAAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctttgatactccacttgtttttcaacactcaggagtcttctctgtccatttcagGTGTTAAACAAAATGGAAGTGTATCACATTTCTTCCACAGAACATTTAAGGCTTACAACACTGGGACTAGGAAGCGTCGAAGGATAAACACTGACGATGC
 ctttgat  putative branch site (score: 5)
                                    tcttctctgtccattt  putative PPT
               ttgttttt  TA-rich tract