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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagctcaaacaacatgactatttctaattttgtgttatttgagcatctattagaaaggtctcactcttttttgtatttatttctgcagGTGACAAATATATTGATGAG

Basic information

species Zea mays
transcript GRMZM2G019361_T01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G019361_T01 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os03g58240.1 (Oryza sativa), 3'ss of exon 10
gtcagctcaaacaacat----gactatttctaattttgtgt-tatttgagcatctatta-gaaaggtctcact--cttttttgtatttatttctgcagGTGACAAATATATTGATGAG
|| ||  |||    | |    ||||||||   |  |  ||  ||| |     | | ||  | |  ||   | |    || ||  ||  ||||||||||| ||||||||||||||||||
gttagtacaagttgcctttttgactattttatagctaatgaatatctagagttgtcttgtgcattgttggattgatcttctttaatgaatttctgcagGGGACAAATATATTGATGAG
















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|91050205|gb|EB160623.1|EB160623
EST:     CAAATGGTCAATGAAGCCCTTCAACGGGTGCCTAATGATAATG                         GTGACAAATATATTGATGAG
genomic: CAAATGGTCAATGAAGCCCTTCAACGGGTGCCTAATGATAATGgtcagctcaa ... atttctgcagGTGACAAATATATTGATGAG
EST: gi|31361636|gb|CD445993.1|CD445993
EST:     TGTTCAACAAATGGTCAATGAAGCCCTTCAACGGGTGCCTAATGATAATG                         GTGACAAATATATTGATGAG
genomic: TGTTCAACAAATGGTCAATGAAGCCCTTCAACGGGTGCCTAATGATAATGgtcagctcaa ... atttctgcagGTGACAAATATATTGATGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttatttgagcatctattagaaaggtctcactcttttttgtatttatttctgcagGTGACAAATATATTGATGAG
                        gtctcac  putative branch site (score: 3)
                              ctcttttttgtattta  CT-rich tract
                               tcttttttgtatttat  TA-rich tract