Sequence
atgc intronic sequence ATGC exonic sequence...atttcacctgaagtttgcaacatactgtattcgctacccaacaaacatgtctgaaaagcgatgaggacatgtagtttagctgcgcgttttcttgttgcagGTATGAGCGTTTCCTCAAAATAATGATTTTGAGTGTTCTAAAAAAGACACAGAGGCCAGTGAAGTTTTGGTTCATTAAGAATTATCTATCTCCACAGTTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G846198_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g44510.1 (Oryza sativa), 3'ss of exon 10
atttcacctgaagtttgcaacatactgtattcgctacccaacaaacatgtctgaaaagcgatgaggacatgtagtttagctgcgcgttttcttgttgcagGTATGAGCGTTTCCTCAAAATAATGATTTTGAGTGTTCTAAAAAAGACACAGAGGCCAGTGAAGTTTTGGTTCATTAAGAATTATCTATCTCCACAGTTC
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ctttttccagagcaaagcgctggttattaccctacaaagaacatgttattttgagaagtaatgagaacaggtgatttagctgcaaagtgttctgttgcagGTATGAACGTTTCCTCAAGATAATGATTTTGAGTGTATTAAAGCAAACACAAAGACCTGTGAAATTCTGGTTCATAAAGAATTATCTATCTCCACAGTTC
upper sequence: GRMZM5G846198_T01 (Zea mays), 3'ss of exon 3
lower sequence: EFJ07070 (Selaginella moellendorffii), 3'ss of exon 27
atttcacctgaagtttgcaacatactgtattcgctacccaacaaacatgtctgaaaagcgatgaggacatgtagtttagctgcgcgttttcttgttgcagGTATGAGCGTTTCCTCAAAATAATGATTTTGAGTGTTCTAAAAAAGACACAGAGGCCAGTGAAGTTTTGGTTCATTAAGAATTATCTATCTCCACAGTTC
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--------------------------------------------gtaagtcttagatgtttgaatgatccgactttctcacagaaggttt------gcagATACGAGCGTTTTCTAAAGATTATGATGCTCAGCGTTTTGAAGAATACTAGACGGCCAGTGAAATTTTGGTTTATCAAGAATTATCTTTCTCCACAATTTMapped 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|32930138|gb|CF034950.1|CF034950EST: GCAAGACAAGGGGAGACCATAAATATATTCTCTGTTGCTTCTGGGCATCT GTATGAGCGTTTCCTCAAAATAATGATTTTGAGTGTTCTAAAAAAGACACA
genomic: GCAAGACAAGGGGAAACCATAAATATATTCTCTGTTGCTTCTGGGCATCTgtatgtctcc ... cttgttgcagGTATGAGCGTTTCCTCAAAATAATGATTTTGAGTGTTCTAAAAAAGACACA
EST:
gi|32850563|gb|CD990244.1|CD990244EST: GCAAGACAAGGGGAGACCATAAATATATTCCCTGTTGCTTCTGGGCATCT GTATGAGCGTTTCCTCAAAATAATGATTTTGAGTGTTCTAAAAAAGACACA
genomic: GCAAGACAAGGGGAAACCATAAATATATTCTCTGTTGCTTCTGGGCATCTgtatgtctcc ... cttgttgcagGTATGAGCGTTTCCTCAAAATAATGATTTTGAGTGTTCTAAAAAAGACACA
EST:
gi|32835266|gb|CD974944.1|CD974944EST: GCAAGACAAGGGGAGACCATAAATATATTCTCTGTTGCTTCTGGGCATCT GTATGAGCGTTTCCTCAAAATAATGATTTTGAGTGTTCTAAAAAAGACACA
genomic: GCAAGACAAGGGGAAACCATAAATATATTCTCTGTTGCTTCTGGGCATCTgtatgtctcc ... cttgttgcagGTATGAGCGTTTCCTCAAAATAATGATTTTGAGTGTTCTAAAAAAGACACA
EST:
gi|32850558|gb|CD990239.1|CD990239EST: GCAAGCCAAGGGGAGACCATAAATATATTCCCTGTTGCCTCTGGGCATCT GTATGAGCGTTTCCTCAAAATAATGATTTTGAGTGTTCTAAAAAAGACACA
genomic: GCAAGACAAGGGGAAACCATAAATATATTCTCTGTTGCTTCTGGGCATCTgtatgtctcc ... cttgttgcagGTATGAGCGTTTCCTCAAAATAATGATTTTGAGTGTTCTAAAAAAGACACA
EST:
gi|32932543|gb|CF037355.1|CF037355EST: GCAAGACAAGGGGAGACCATAAATATATTCTCTGTTGCTTCTGGGCATCT GTATGAGCGTTTCCTCAAAATAATGATTTTGAGTGTTCTAAAAAAGACACA
genomic: GCAAGACAAGGGGAAACCATAAATATATTCTCTGTTGCTTCTGGGCATCTgtatgtctcc ... cttgttgcagGTATGAGCGTTTCCTCAAAATAATGATTTTGAGTGTTCTAAAAAAGACACA
EST:
gi|32850631|gb|CD990312.1|CD990312EST: GCAAGCCAAGGGGAGACCATAAATATATTCCCTGTTGCTTCTGGGCATCT GTATGAGCGTTTCCTCAAAATAATGATTTTGAGTGTTCTAAAAAAGACACA
genomic: GCAAGACAAGGGGAAACCATAAATATATTCTCTGTTGCTTCTGGGCATCTgtatgtctcc ... cttgttgcagGTATGAGCGTTTCCTCAAAATAATGATTTTGAGTGTTCTAAAAAAGACACA
EST:
gi|9743043|gb|BE519191.1|BE519191EST: GCAAGACAAGGGGAGACCATAAATATATTCTCTGTTGCTTCTGGGCATCT GTATGAGCGTTTCCTCAAAATAATGATTTTGAGTGTTCTAAAAAAGACACA
genomic: GCAAGACAAGGGGAAACCATAAATATATTCTCTGTTGCTTCTGGGCATCTgtatgtctcc ... cttgttgcagGTATGAGCGTTTCCTCAAAATAATGATTTTGAGTGTTCTAAAAAAGACACA
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:
44 (upstream exon),
49 (downstream exon)
Score:
127GACCGTAAGGATGCAAGACAAGGGGAAACCATAAATATATTCTCTGTTGCTTCTGGGCATCTgtatgtctcc ... cttgttgcagGTATGAGCGTTTCCTCAAAATAATGATTTTGAGTGTTCTAAAAAAGACACAGAGGCCAGTGAAGTTTTGGTTCATTAAGAATTATCTATCTCCACAGTTC
Block sizes:
44 (upstream exon),
49 (downstream exon)
Score:
95GACCGTAAGGATGCAAGACAAGGGGAAACCATAAATATATTCTCTGTTGCTTCTGGGCATCTgtatgtctcc ... cttgttgcagGTATGAGCGTTTCCTCAAAATAATGATTTTGAGTGTTCTAAAAAAGACACAGAGGCCAGTGAAGTTTTGGTTCATTAAGAATTATCTATCTCCACAGTTC
Block sizes:
44 (upstream exon),
49 (downstream exon)
Score:
192GACCGTAAGGATGCAAGACAAGGGGAAACCATAAATATATTCTCTGTTGCTTCTGGGCATCTgtatgtctcc ... cttgttgcagGTATGAGCGTTTCCTCAAAATAATGATTTTGAGTGTTCTAAAAAAGACACAGAGGCCAGTGAAGTTTTGGTTCATTAAGAATTATCTATCTCCACAGTTC
Block sizes:
44 (upstream exon),
49 (downstream exon)
Score:
152GACCGTAAGGATGCAAGACAAGGGGAAACCATAAATATATTCTCTGTTGCTTCTGGGCATCTgtatgtctcc ... cttgttgcagGTATGAGCGTTTCCTCAAAATAATGATTTTGAGTGTTCTAAAAAAGACACAGAGGCCAGTGAAGTTTTGGTTCATTAAGAATTATCTATCTCCACAGTTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catgtctgaaaagcgatgaggacatgtagtttagctgcgcgttttcttgttgcagGTATGAGCGTTTCCTCAAAATAATGATTTTGAGTGTTCTAAAAAAGACACAGAGGCCAGTGAAGTTTTGGTTCATTAAGAATTATCTATCTCCACAGTTC
ttttcttgtt CT-rich tract
tagttta TA-rich tract