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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACAGAGCAAAAGTGGCCTACCCAGATGTTTCTAACAGTGATGTGCCGTACTTGTGTATGGATCTTACTTACACGTACACATTGCTCGTTGACGGCTTCGgtaagttgcatcggttcttgaatcgatggaacctttgttgctttgaagctcttggcaatcagacttcactctcggcatagttcgatttatgtctgattagatgcattgtcgcag

Basic information

species Zea mays
transcript GRMZM2G085711_T02
intron # 8
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|76013367|gb|DT940537.1|DT940537
EST:     CTTGTGTATGGATCTTACTTACACGTACACATTGCTCGTTGACGGCTTCG                         GTCTGCAGCCAATGAAAAAGATTACATTTGTATCCAAGGTGAAGCATGGCG
genomic: CTTGTGTATGGATCTTACTTACACGTACACATTGCTCGTTGACGGCTTCGgtaagttgca ... attgtcgcagGTCTGCAGCCAATGAAAAAGATTACATTTGTATCCAAGGTGAAGCATGGCG
EST: gi|76011900|gb|DT939070.1|DT939070
EST:     CTTGTGTATGGATCTTACTTACACGTACACATTGCTCGTTGACGGCTTCG                         GTCTGCAGCCAATGAAAAAGATTACATTTGTATCCAAGGTGAAGCATGGCG
genomic: CTTGTGTATGGATCTTACTTACACGTACACATTGCTCGTTGACGGCTTCGgtaagttgca ... attgtcgcagGTCTGCAGCCAATGAAAAAGATTACATTTGTATCCAAGGTGAAGCATGGCG
EST: gi|67027734|gb|CO456483.1|CO456483
EST:     CTTGTGTATGGATCTTACTTACACGTACACATTGCTCGTTGACGGCTTCG                         GTCTGCAGCCAATGAAAAAGATTACATTTGTATCCAAGGTGAAGCATGGCG
genomic: CTTGTGTATGGATCTTACTTACACGTACACATTGCTCGTTGACGGCTTCGgtaagttgca ... attgtcgcagGTCTGCAGCCAATGAAAAAGATTACATTTGTATCCAAGGTGAAGCATGGCG
EST: gi|78120621|gb|DV539005.1|DV539005
EST:     CTTGTGTATGGATCTTACTTACACGTACACATTGCTCGTTGACGGCTTCG                         GTCTGCAGCCAATGAAAAAGATTACATTTGTATCCAAGGTGAAGCATGGCG
genomic: CTTGTGTATGGATCTTACTTACACGTACACATTGCTCGTTGACGGCTTCGgtaagttgca ... attgtcgcagGTCTGCAGCCAATGAAAAAGATTACATTTGTATCCAAGGTGAAGCATGGCG
EST: gi|24764671|gb|CA399835.1|CA399835
EST:     CTTGTGTATGGATCTTACTTACACGTACACATTGCTAGTTGACGGCTTCG                         GTCTGCAGCCAATGAAAAAGATTACATTTGTATCCAAGGTGAAGCATGGCG
genomic: CTTGTGTATGGATCTTACTTACACGTACACATTGCTCGTTGACGGCTTCGgtaagttgca ... attgtcgcagGTCTGCAGCCAATGAAAAAGATTACATTTGTATCCAAGGTGAAGCATGGCG
EST: gi|71323602|gb|DR798473.1|DR798473
EST:     CTTGTGTATGGATCTTACTTACACGTACACATTGCTCGTTGACGGCTTCG                         GTCTGCAGCCAATGAAAAAGATTATATTTGTATCCAAGGTGAAGCATGGCG
genomic: CTTGTGTATGGATCTTACTTACACGTACACATTGCTCGTTGACGGCTTCGgtaagttgca ... attgtcgcagGTCTGCAGCCAATGAAAAAGATTACATTTGTATCCAAGGTGAAGCATGGCG
EST: gi|86474415|gb|DY240785.1|DY240785
EST:     CTTGTGTATGGATCTTACTTACACGTACACATTGCTCGTTGACGGCTTCG                         GTCTGCAGCCAATGAAAAAGATTACATTTGTATCCAAGGTGAAGCATGGCG
genomic: CTTGTGTATGGATCTTACTTACACGTACACATTGCTCGTTGACGGCTTCGgtaagttgca ... attgtcgcagGTCTGCAGCCAATGAAAAAGATTACATTTGTATCCAAGGTGAAGCATGGCG
EST: gi|93283843|gb|EB676107.1|EB676107
EST:     CTTGTGTATGGATCTTACTTACACGTACACATTGCTCGTTGACGGCTTCG                         GTCTGCAGCCAATGAAAAAGATTACATTTGTATCCAAGGTGAAGCATGGCG
genomic: CTTGTGTATGGATCTTACTTACACGTACACATTGCTCGTTGACGGCTTCGgtaagttgca ... attgtcgcagGTCTGCAGCCAATGAAAAAGATTACATTTGTATCCAAGGTGAAGCATGGCG
EST: gi|91876115|gb|EB406072.1|EB406072
EST:     CTTGTGTATGGATCTTACTTACACGTACACATTGCTCGTTGACGGCTTCG                         GTCTGCAGCCAATGAAAAAGATTACATTTGTATCCAAGGTGAAGCATGGCG
genomic: CTTGTGTATGGATCTTACTTACACGTACACATTGCTCGTTGACGGCTTCGgtaagttgca ... attgtcgcagGTCTGCAGCCAATGAAAAAGATTACATTTGTATCCAAGGTGAAGCATGGCG
EST: gi|78120471|gb|DV538855.1|DV538855
EST:     CTTGTGTATGGATCTTACTTACACGTACACATTGCTCGTTGACGGCTTCG                         GTCTGCAGCCAATGAAAAAGATTACATTTGTATCCAAGGTGAAGCATGGCG
genomic: CTTGTGTATGGATCTTACTTACACGTACACATTGCTCGTTGACGGCTTCGgtaagttgca ... attgtcgcagGTCTGCAGCCAATGAAAAAGATTACATTTGTATCCAAGGTGAAGCATGGCG
EST: gi|93283595|gb|EB675859.1|EB675859
EST:     CTTGTGTATGGATCTTACTTACACGTACACATTGCTCGTTGACGGCTTCG                         GTCTGCAGCCAATGAAAAAGATTACATTTGTATCCAAGGTGAAGCATGGCG
genomic: CTTGTGTATGGATCTTACTTACACGTACACATTGCTCGTTGACGGCTTCGgtaagttgca ... attgtcgcagGTCTGCAGCCAATGAAAAAGATTACATTTGTATCCAAGGTGAAGCATGGCG
EST: gi|78120185|gb|DV538569.1|DV538569
EST:     CTTGTGTATGGATCTTACTTACACGTACACATTGCTCGTTGACGGCTTCG                         GTCTGCAGCCAATGAAAAAGATTACATTTGTATCCAAGGTGAAGCATGGCG
genomic: CTTGTGTATGGATCTTACTTACACGTACACATTGCTCGTTGACGGCTTCGgtaagttgca ... attgtcgcagGTCTGCAGCCAATGAAAAAGATTACATTTGTATCCAAGGTGAAGCATGGCG
EST: gi|76910374|gb|DV163830.1|DV163830
EST:     CTTGTGTATGGATCTTACTTACACGTACACATTGCTCGTTGACGGCTTCG                         GTCTGCAGCCAATGAAAAAGATTACATTTGTATCCAAGGTGAAGCATGGCG
genomic: CTTGTGTATGGATCTTACTTACACGTACACATTGCTCGTTGACGGCTTCGgtaagttgca ... attgtcgcagGTCTGCAGCCAATGAAAAAGATTACATTTGTATCCAAGGTGAAGCATGGCG
EST: gi|94472513|gb|EB701471.1|EB701471
EST:     CTTGTGTATGGATCTTACTTACACGTACACATTGCTCGTTGACGGCTTCG                         GTCTGCAGCCAATGAAAAAGATTACATTTGTATCCAAGGTGAAGCATGGCG
genomic: CTTGTGTATGGATCTTACTTACACGTACACATTGCTCGTTGACGGCTTCGgtaagttgca ... attgtcgcagGTCTGCAGCCAATGAAAAAGATTACATTTGTATCCAAGGTGAAGCATGGCG

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 3 RNA-Seq libraries.


Block sizes: 17 (upstream exon), 33 (downstream exon)
Score: 1

AACAGAGCAAAAGTGGCCTACCCAGATGTTTCTAACAGTGATGTGCCGTACTTGTGTATGGATCTTACTTACACGTACACATTGCTCGTTGACGGCTTCGgtaagttgca ... attgtcgcagGTCTGCAGCCAATGAAAAAGATTACATTTGTATCCAAGGTGAAGCATGGCGAATACTACATCGAAGCCACATGGCCTTTGGGTACGGCTATTGAGGCCGT


Block sizes: 28 (upstream exon), 22 (downstream exon)
Score: 3

AACAGAGCAAAAGTGGCCTACCCAGATGTTTCTAACAGTGATGTGCCGTACTTGTGTATGGATCTTACTTACACGTACACATTGCTCGTTGACGGCTTCGgtaagttgca ... attgtcgcagGTCTGCAGCCAATGAAAAAGATTACATTTGTATCCAAGGTGAAGCATGGCGAATACTACATCGAAGCCACATGGCCTTTGGGTACGGCTATTGAGGCCGT


Block sizes: 36 (upstream exon), 44 (downstream exon)
Score: 3

AACAGAGCAAAAGTGGCCTACCCAGATGTTTCTAACAGTGATGTGCCGTACTTGTGTATGGATCTTACTTACACGTACACATTGCTCGTTGACGGCTTCGgtaagttgca ... attgtcgcagGTCTGCAGCCAATGAAAAAGATTACATTTGTATCCAAGGTGAAGCATGGCGAATACTACATCGAAGCCACATGGCCTTTGGGTACGGCTATTGAGGCCGT