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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcttctccatgcgctgttgccattatatttgacttctctccctcaattctgtaagtggtaatactggtatatgcttaattggcatgatttttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGTTGTTATCCAGCATCGTTTTTTGATAAG

Basic information

species Zea mays
transcript GRMZM2G114220_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G114220_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os04g48770.1 (Oryza sativa), 3'ss of exon 2
tcttctccatgcgctgttgccattatatttgacttctctccctcaattctgtaagtggtaatactggtatatgcttaattgg---catgatttttccat--gtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGTTGTTATCCAGCATCGTTTTTTGATAAG
   || | |     | ||  |  | | | |||    | ||  |  |   || |    |||||  ||| ||| |||||| |       | |||||| | |  | ||||||| |  |||||||  |||||||| |     |||||||||||||||||||||||||||||||| || ||||| |||
-aatcactacttattctt--ctgtgtgtgtgatgcttgtcttttcaggttgcactatgtaat--tggcataagcttaactaatccttttatttttgcttctgcagTTTTATGCAGGATATGGCTACCATGGGAGTAACTTTGAGCAAACATACCGTTGTTATCCAGCATCTTTCTTTGACAAG
















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|211392505|gb|FL156794.1|FL156794
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|211389874|gb|FL156779.1|FL156779
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|211389876|gb|FL156781.1|FL156781
EST:     --G-TTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|211389878|gb|FL156783.1|FL156783
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|211392499|gb|FL156788.1|FL156788
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|211392496|gb|FL156785.1|FL156785
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|211389879|gb|FL156784.1|FL156784
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|50338446|gb|CO533572.1|CO533572
EST:     CA-GTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|211392507|gb|FL156796.1|FL156796
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|211392498|gb|FL156787.1|FL156787
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|76909136|gb|DV163240.1|DV163240
EST:     CA-GTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|6637070|gb|AW261342.1|AW261342
EST:     CA-GTTGAGGGAAGTTGAAGCAAAAGTCTAACCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|71417924|gb|DR804257.1|DR804257
EST:     CA-GTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTCTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|211392504|gb|FL156793.1|FL156793
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|211392503|gb|FL156792.1|FL156792
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|91049005|gb|EB159423.1|EB159423
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|32859779|gb|CD999460.1|CD999460
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|32862738|gb|CF002420.1|CF002420
EST:     CA-GTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|211395124|gb|FL156801.1|FL156801
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|211392510|gb|FL156799.1|FL156799
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|211395123|gb|FL156800.1|FL156800
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|211392502|gb|FL156791.1|FL156791
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|211389877|gb|FL156782.1|FL156782
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|91873355|gb|EB403312.1|EB403312
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|14242735|gb|BG840580.2|BG840580
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|213183590|gb|FM196389.1|FM196389
EST:     CA-GTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|211392508|gb|FL156797.1|FL156797
EST:     --G-TTGAGGGAAGTTGAAGCAAAAGTCTAA-CAAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCG
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAA-TGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCG
EST: gi|93015584|gb|EB641104.1|EB641104
EST:     CA-GTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attctgtaagtggtaatactggtatatgcttaattggcatgatttttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGTTGTTATCCAGCATCGTTTTTTGATAAG
                           gcttaat  putative branch site (score: 4)
                                          tttttccat  putative PPT
                                      atgattttt  TA-rich tract