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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttaatttgctctgaactcctattcctgcagctcttgatataaacatttatcgatgatatctcatgttgaagctacttctttggcagATTTTTAGAACACTCGGCACACCTAATGAGAAGATTTGGCCTGGCTATGCTAAATTACCAGGTGTGAAAGTAAATTTTGTTAAACAACC

Basic information

species Zea mays
transcript GRMZM2G179097_T04
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G179097_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os04g41100.2 (Oryza sativa), 3'ss of exon 3
-------------------------------------------------------------gtatttaatttgctctgaactccta--ttcctgcagctcttgatataaacatttatcgatgatatctcatgttgaagctacttctttggcagATTTTTAGAACACTCGGCACACCTAATGAGAAGATTTGGCCTGGCTATGCTAAATTACCAGGTGTGAAAGTAAATTTTGTTAAACAACC
                                                              | ||  |||| || |    |   |  | |||  |   ||||||||| |   |  | ||| |||||||||| ||||||||||| | | |||||| ||||||||||| ||||||||||| |||||||| |||||||||||||| ||||| || ||||| ||||| |||||||| ||||||||
gtatttcgtttgacttgtgattttgcatccttgcaattactatatttttttcagaggtctcatgttggatttcctttcctgttgcagatacctataaaccttgatatatattatatttgatcatatctcatggtgaagctacttttattgcagATATTTAGAACACTTGGCACACCTAACGAGAAGATATGGCCTGGCTATGCCAAATTGCCGGGTGTAAAAGTCAATTTTGTCAAACAACC
















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|31664323|gb|CD573048.1|CD573048
EST:     CCAAAGAACCGTTATTCAATGGAAAAACAGAGTTTGAACAGCTAGATAAG                         ATTTTTAGAACACTCGGCACACCTAATGAGAAGATTTGGCCTGGCTATGCT
genomic: CCAAAGAACCGTTATTCAATGGAAAAACAGAGTTTGAACAGCTAGATAAGgtatttaatt ... tctttggcagATTTTTAGAACACTCGGCACACCTAATGAGAAGATTTGGCCTGGCTATGCT
EST: gi|211055687|gb|FL451729.1|FL451729
EST:     CCAAAGAACCGTTATTCAATGGAAAAACAGAGTTTGAACAGCTAGATAAG                         ATTTTTAGAACACTCGGCACACCTAATGAGAAGATTTGGCCTGGCTATGCT
genomic: CCAAAGAACCGTTATTCAATGGAAAAACAGAGTTTGAACAGCTAGATAAGgtatttaatt ... tctttggcagATTTTTAGAACACTCGGCACACCTAATGAGAAGATTTGGCCTGGCTATGCT
EST: gi|6020498|gb|AW065426.1|AW065426
EST:     CCAAAGAACCGGTATTCAATGGAAAAACAGAGTTTGAACAGCTAGATAAG                         ATTTTTAGAACACTCGGCACACCTAATGAGAA
genomic: CCAAAGAACCGTTATTCAATGGAAAAACAGAGTTTGAACAGCTAGATAAGgtatttaatt ... tctttggcagATTTTTAGAACACTCGGCACACCTAATGAGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttgatataaacatttatcgatgatatctcatgttgaagctacttctttggcagATTTTTAGAACACTCGGCACACCTAATGAGAAGATTTGGCCTGGCTATGCTAAATTACCAGGTGTGAAAGTAAATTTTGTTAAACAACC
 tcttgat  putative branch site (score: 4)
                                        ctacttcttt  putative PPT
     atataaacatttat  TA-rich tract