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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACCAGCTATTCATGCAACAAATCGGCGAATTACTGCAAAAGgtgagaaatgattatataatatgtagtagcaaactagtggcgttaactgcaaaatgacatttttaattaagttccttatttgagatcctgccatttcatt...

Basic information

species Zea mays
transcript GRMZM5G814279_T02
intron # 6
splice site 5'
intron type U2

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|60359649|gb|DN226622.1|DN226622
EST:     GACCAGCTATTCATGCAACAAATCGGCGAATTACTGCAAAAG                         GGCACACAGCTAGAAGATGAGAACAGGCGTCTAAAAGAACAA
genomic: GACCAGCTATTCATGCAACAAATCGGCGAATTACTGCAAAAGgtgagaaatg ... tttcttgtagGGCACACAGCTAGAAGATGAGAACAGGCGTCTAAAAGAACAA
EST: gi|60341355|gb|DN208328.1|DN208328
EST:     GACCAGCTATTCATGCAACAAATCGGCGAATTACTGCAAAAG                         GGCACACAGCTAGAAGATGAGAACAGGCGTCTAAAAGAACAA
genomic: GACCAGCTATTCATGCAACAAATCGGCGAATTACTGCAAAAGgtgagaaatg ... tttcttgtagGGCACACAGCTAGAAGATGAGAACAGGCGTCTAAAAGAACAA
EST: gi|91871951|gb|EB401908.1|EB401908
EST:     GACCAGCTATTCATGCAACAAATCGGCGAATTACTGCAAAAG                         GGCACACAGCTAGAAGATGGGAACAGGCGTCTAAAAGAACAA
genomic: GACCAGCTATTCATGCAACAAATCGGCGAATTACTGCAAAAGgtgagaaatg ... tttcttgtagGGCACACAGCTAGAAGATGAGAACAGGCGTCTAAAAGAACAA
EST: gi|91871952|gb|EB401909.1|EB401909
EST:     GACCAGCTATTCATGCAACAAATCGGCGAATTACTGCAAAAG                         GGCACACAGCTAGAAGATGAGAACAGGCGTCTAAAAGAACAA
genomic: GACCAGCTATTCATGCAACAAATCGGCGAATTACTGCAAAAGgtgagaaatg ... tttcttgtagGGCACACAGCTAGAAGATGAGAACAGGCGTCTAAAAGAACAA
EST: gi|71312209|gb|DR792627.1|DR792627
EST:     GACCAGCTATTCATGCAACAAATCGGCGAATTACTGCAAAAG                         GGCACACAGCTAGAAGATGAGAACAGGCGTCTAAAAGAACAA
genomic: GACCAGCTATTCATGCAACAAATCGGCGAATTACTGCAAAAGgtgagaaatg ... tttcttgtagGGCACACAGCTAGAAGATGAGAACAGGCGTCTAAAAGAACAA
EST: gi|60355305|gb|DN222278.1|DN222278
EST:     GACCAGCTATTCATGCAACAAATCGGCGAATTACTGCAAAAG                         GGCACACAGCTAGAAGATGAGAACAGGCGTCTAAAAGAACAA
genomic: GACCAGCTATTCATGCAACAAATCGGCGAATTACTGCAAAAGgtgagaaatg ... tttcttgtagGGCACACAGCTAGAAGATGAGAACAGGCGTCTAAAAGAACAA

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 4 RNA-Seq libraries.


Block sizes: 47 (upstream exon), 45 (downstream exon)
Score: 55

GACCAGCTATTCATGCAACAAATCGGCGAATTACTGCAAAAGgtgagaaatg ... tttcttgtagGGCACACAGCTAGAAGATGAGAACAGGCGTCTAAAAGAACAA


Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 37

GACCAGCTATTCATGCAACAAATCGGCGAATTACTGCAAAAGgtgagaaatg ... tttcttgtagGGCACACAGCTAGAAGATGAGAACAGGCGTCTAAAAGAACAA


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 19

GACCAGCTATTCATGCAACAAATCGGCGAATTACTGCAAAAGgtgagaaatg ... tttcttgtagGGCACACAGCTAGAAGATGAGAACAGGCGTCTAAAAGAACAA


Block sizes: 29 (upstream exon), 37 (downstream exon)
Score: 3

GACCAGCTATTCATGCAACAAATCGGCGAATTACTGCAAAAGgtgagaaatg ... tttcttgtagGGCACACAGCTAGAAGATGAGAACAGGCGTCTAAAAGAACAA