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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaatgctttctacataatttcagtaacatcttataatggagtcatcagtcattgcattggtgcccatttgctagGTTGCTGATTTTGGTCTTGCAAGGATAGCTATGGATGCTTGCACTCATGTAACTACACGAGTGATGGGAACTTTTGG

Basic information

species Zea mays
transcript GRMZM2G355636_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G355636_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os01g02040.1 (Oryza sativa), 3'ss of exon 4
gtaagaatgctttctacataatttcagtaacatcttataatggagtcatcagt--cattgcattggtgcccatttgctagGTTGCTGATTTTGGTCTTGCAAGGATAGCTATGGATGCTTGCACTCATGTAACTACACGAGTGATGGGAACTTTTGG
|||| ||   | | || |||| ||  |  |    ||||||||    |||   |   | |    || |   | | || ||||||||||||||||| ||||||||  |||||||||||||   ||| |||||||||||||| |||||||||||||||||
gtaacaacattatttagataaattgggagaggcgttataatgtgaccattgttactaattggctgctattcgtgtgttagGTTGCTGATTTTGGCCTTGCAAGACTAGCTATGGATGCAGTCACGCATGTAACTACACGGGTGATGGGAACTTTTGG
















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|76290952|gb|DV030520.1|DV030520
EST:     GAGATATAAAGTCCTCTAATATTTTGCTGGATAATAACTTCGAAGCACTG                         GTTGCTGATTTTGGTCTTGCAAGGATAGCTATGGATGCTTGCACTCATGTA
genomic: GAGATATAAAGTCCTCTAATATTTTGCTGGATAATAACTTCGAAGCACTGgtaagaatgc ... catttgctagGTTGCTGATTTTGGTCTTGCAAGGATAGCTATGGATGCTTGCACTCATGTA
EST: gi|211250045|gb|FL413628.1|FL413628
EST:     GAGATATAAAGTCCTCTAATATTTTGCTGGATAATAACTTCGAAGCACTG                         GTTGCTGATTTTGGTCTTGCAAGGATAGCTATGGATGCTTGCACTCATGTA
genomic: GAGATATAAAGTCCTCTAATATTTTGCTGGATAATAACTTCGAAGCACTGgtaagaatgc ... catttgctagGTTGCTGATTTTGGTCTTGCAAGGATAGCTATGGATGCTTGCACTCATGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcagtaacatcttataatggagtcatcagtcattgcattggtgcccatttgctagGTTGCTGATTTTGGTCTTGCAAGGATAGCTATGGATGCTTGCACTCATGTAACTACACGAGTGATGGGAACTTTTGG
 cagtaac  putative branch site (score: 2)
                                           cccattt  putative PPT
        atcttataat  TA-rich tract