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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcatgccttcgtgtcagacgggtattttaccccgcaaggaacatgacgagtcctgtcgtttgatgttctttctatcgccagGTAAGGTGTCAGATCCTGCAAAGGGTGTTTACGGAGCGGGCGCCCATTCAGACTACGGCCTGATAACTCTCCTGGCAACCGATGATGTAGTTGGGCTCCA

Basic information

species Zea mays
transcript GRMZM2G147882_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G147882_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os01g09300.3 (Oryza sativa), 3'ss of exon 5
---------------gtcatgccttcgtgtcagacgggtattttaccccgcaaggaacatgacgagtcctgtcgtttgatgttctttctatcgccagGTAAGGTGTCAGATCCTGCAAAGGGTGTTTACGGAGCGGGCGCCCATTCAGACTACGGCCTGATAACTCTCCTGGCAACCGATGATGTAGTTGGGCTCCA
               ||||||| ||| || |   | | |||||||   | |||| ||||| |||| | |||||||||||||||| || | ||  ||||||| || ||| |||||||| |||| ||||  ||||| || |||||||| || || ||||| || ||||| ||||||||||||||||||||||| |||||
gtggacaaaaaacaggtcatgcattcttgccgttcag-tattttattacacaagaaacataacgaattctgtcgtttgatgttccttttttcatcagGTAAAGTATCAAATCCTGCAGAGGGAGTTTTTGGAGCAGGTGCCCATTCTGATTATGGCCTAATCACTCTACTGGCAACCGATGATGTAGTTGGTCTCCA

upper sequence: GRMZM2G147882_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os01g09300.2 (Oryza sativa), 3'ss of exon 5
gtcatgccttcgtgtcagacgggtattttaccccgcaaggaacatgacgagtcctgtcgtttgatgttctttctatcgccagGTAAGGTGTCAGATCCTGCAAAGGGTGTTTACGGAGCGGGCGCCCATTCAGACTACGGCCTGATAACTCTCCTGGCAACCGATGATGTAGTTGGGCTCCA
||||||| ||| || |   | | |||||||   | |||| ||||| |||| | |||||||||||||||| || | ||  ||||||| || ||| |||||||| |||| ||||  ||||| || |||||||| || || ||||| || ||||| ||||||||||||||||||||||| |||||
gtcatgcattcttgccgttcag-tattttattacacaagaaacataacgaattctgtcgtttgatgttccttttttcatcagGTAAAGTATCAAATCCTGCAGAGGGAGTTTTTGGAGCAGGTGCCCATTCTGATTATGGCCTAATCACTCTACTGGCAACCGATGATGTAGTTGGTCTCCA
















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|32924156|gb|CF028968.1|CF028968
EST:     GTCAATAGCCACGCTAAGGCTCCTGCACTACGAAGGTGGACAAGAAACAG                         GTAAGGTGTCAGATCCTGCAAAGGGTGTTTACGGAGCGGGCGCCCATTCAG
genomic: GTCCATAGCCACGCTAAGGCTCCTGCACTACGAAGGTGGACAAGAAACAGgtcatgcctt ... ctatcgccagGTAAGGTGTCAGATCCTGCAAAGGGTGTTTACGGAGCGGGCGCCCATTCAG
EST: gi|32924444|gb|CF029256.1|CF029256
EST:     GTCAATAACCACGCTAAGGCTCCTGCACTACAAAGGTGGACAAGAAACAG                         GTAAGGTGTCAGATCCTGCAAAGGGTGTTTACGGAGCGGGCGCCCATTCAG
genomic: GTCCATAGCCACGCTAAGGCTCCTGCACTACGAAGGTGGACAAGAAACAGgtcatgcctt ... ctatcgccagGTAAGGTGTCAGATCCTGCAAAGGGTGTTTACGGAGCGGGCGCCCATTCAG
EST: gi|32858736|gb|CD998417.1|CD998417
EST:     GTCAATAGCCACGCTAAGGCTCCTGCACTACGAAGGTGGACAAGAAACAG                         GTAAGGTGTCAGATCCTGCAAAGGGTGTTTACGGAGCGGGCGCCCATTCAG
genomic: GTCCATAGCCACGCTAAGGCTCCTGCACTACGAAGGTGGACAAGAAACAGgtcatgcctt ... ctatcgccagGTAAGGTGTCAGATCCTGCAAAGGGTGTTTACGGAGCGGGCGCCCATTCAG
EST: gi|32923806|gb|CF028618.1|CF028618
EST:     GTCAATAGCCACGCTAAGGCTCCTGCACTACGAAGGTGGACAAGAAACAG                         GTAAGGTGTCAGATCCTGCAAAGGGTGTTTACGGAGCGGGCGCCCATTCAG
genomic: GTCCATAGCCACGCTAAGGCTCCTGCACTACGAAGGTGGACAAGAAACAGgtcatgcctt ... ctatcgccagGTAAGGTGTCAGATCCTGCAAAGGGTGTTTACGGAGCGGGCGCCCATTCAG
EST: gi|32924110|gb|CF028922.1|CF028922
EST:     GTCAATAGCCACGCTAAGGCTCCTGCACTACGAAGGTGGACAAGAAACAG                         GTAAGGTGTCAGATCCTGCAAAGGGTGTTTACGGAGCGGGCGCCCATTCAG
genomic: GTCCATAGCCACGCTAAGGCTCCTGCACTACGAAGGTGGACAAGAAACAGgtcatgcctt ... ctatcgccagGTAAGGTGTCAGATCCTGCAAAGGGTGTTTACGGAGCGGGCGCCCATTCAG
EST: gi|32923874|gb|CF028686.1|CF028686
EST:     GTCAATAGCCACGCTAAGGCTCCTGCACTACGGAGGTGGACAAGAAACAG                         GTAAGGTGTCAGATCCTGCAAAGGGTGTTTACGGAGCGGGCGCCCATTCAG
genomic: GTCCATAGCCACGCTAAGGCTCCTGCACTACGAAGGTGGACAAGAAACAGgtcatgcctt ... ctatcgccagGTAAGGTGTCAGATCCTGCAAAGGGTGTTTACGGAGCGGGCGCCCATTCAG
EST: gi|32924334|gb|CF029146.1|CF029146
EST:     GTCAATAGCCACGCTAAGGCTCCTGCACTACGAAGGTGGACAAGAAACAG                         GTAAGGTGTCAGATCCTGCAAAGGGTGTTTACGGAGCGGGCGCCCATTCAG
genomic: GTCCATAGCCACGCTAAGGCTCCTGCACTACGAAGGTGGACAAGAAACAGgtcatgcctt ... ctatcgccagGTAAGGTGTCAGATCCTGCAAAGGGTGTTTACGGAGCGGGCGCCCATTCAG
EST: gi|32923638|gb|CF028450.1|CF028450
EST:     GTCAATAGCCACGCTAAGGCTCCTGCACTACGAGGGTGGACAAGAAACAG                         GTAAGGTGTCAGATCCTGCAAAGGGTGTTTACGGAGCGGGCGCCCATTCAG
genomic: GTCCATAGCCACGCTAAGGCTCCTGCACTACGAAGGTGGACAAGAAACAGgtcatgcctt ... ctatcgccagGTAAGGTGTCAGATCCTGCAAAGGGTGTTTACGGAGCGGGCGCCCATTCAG
EST: gi|32923912|gb|CF028724.1|CF028724
EST:     GTCAATAGCCACGCTAAGGCTCCTGCACTACGAAGGTGGACAAGAAACAG                         GTAAGGTGTCAGATCCTGCAAAGGGTGTTTACGGAGCGGGCGCCCATTCAG
genomic: GTCCATAGCCACGCTAAGGCTCCTGCACTACGAAGGTGGACAAGAAACAGgtcatgcctt ... ctatcgccagGTAAGGTGTCAGATCCTGCAAAGGGTGTTTACGGAGCGGGCGCCCATTCAG
EST: gi|32923869|gb|CF028681.1|CF028681
EST:     GTCAATAGCCACGCTAAGGCTCCTGCACTACGAAGGTGGACAAGAAACAG                         GTAAGGTGTCAGATCCTGCAAAGGGTGTTTACGGAGCGGGCGCCCATTCAG
genomic: GTCCATAGCCACGCTAAGGCTCCTGCACTACGAAGGTGGACAAGAAACAGgtcatgcctt ... ctatcgccagGTAAGGTGTCAGATCCTGCAAAGGGTGTTTACGGAGCGGGCGCCCATTCAG
EST: gi|32923708|gb|CF028520.1|CF028520
EST:     GTCAATAGCCACGCTAAGGCTCCTGCACTACGAAGGTGGACAAGAAACAG                         GTAAGGTGTCAGATCCTGCAAAGGGTGTTTACGGAGCGGGCGCCCATTCAG
genomic: GTCCATAGCCACGCTAAGGCTCCTGCACTACGAAGGTGGACAAGAAACAGgtcatgcctt ... ctatcgccagGTAAGGTGTCAGATCCTGCAAAGGGTGTTTACGGAGCGGGCGCCCATTCAG
EST: gi|32924079|gb|CF028891.1|CF028891
EST:     GTCAATAGCCACGCTAAGGCTCCTGCACTACGAAGGTGGACAAGAAACAG                         GTAAGGTGTCAGATCCTGCAAAGGGTGTTTACGGAGCGGGCGCCCATTCAG
genomic: GTCCATAGCCACGCTAAGGCTCCTGCACTACGAAGGTGGACAAGAAACAGgtcatgcctt ... ctatcgccagGTAAGGTGTCAGATCCTGCAAAGGGTGTTTACGGAGCGGGCGCCCATTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaccccgcaaggaacatgacgagtcctgtcgtttgatgttctttctatcgccagGTAAGGTGTCAGATCCTGCAAAGGGTGTTTACGGAGCGGGCGCCCATTCAGACTACGGCCTGATAACTCTCCTGGCAACCGATGATGTAGTTGGGCTCCA
                               gtttgat  putative branch site (score: 5)
                                       ttctttctatcgcc  CT-rich tract
                                          tttctat  TA-rich tract