Sequence
atgc intronic sequence ATGC exonic sequencegtatgttaattacttatattctgagccattaataatttagtgctgctatttgaaccattgattctctttcagGCTTACATGTATGGATTTTTTAAGAATAAACGCATAGTACTCTATGACACATTGATTCAGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G702159_T01 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os02g45650.1 (Oryza sativa), 3'ss of exon 8
gtatgttaattact-tatattc-------tgagccattaataatttagtgctgcta-------------tttgaaccattgattctctttcagGCTTACATGTATGGATTTTTTAAGAATAAACGCATAGTACTCTATGACACATTGATTCAGCAG
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gtatgttgattactctaccttcagggttgtggttcattgataactgatagtttgtaattttctgtgtgctttgaactgacaattttctttcagGCTTACATGTATGGGTTTTTCAAGAACAAGCGCATTGTTCTCTATGACACGTTGATTCAGCAG
upper sequence: GRMZM2G702159_T01 (Zea mays), 3'ss of exon 8
lower sequence: AT4G01320.1 (Arabidopsis thaliana), 3'ss of exon 8
gtatgttaatt-acttatattctgagccattaataatttagtgctgctatttgaaccattgat-tctcttt--------cagGCTTACATGTATGGATTTTTTAAGAATAAACGCATAGTACTCTATGACACATTGATTCAGCAG
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gtgagaagcttgagatctcttcctacctactt-tactctagt-ttaccattagaagcttacgtatcttgttacatcatacagGCTTACATGTATGGTTTCTTTAAGAACAAAAGGATTGTTCTTTATGATACGTTGATTCAGCAG
upper sequence: GRMZM2G702159_T01 (Zea mays), 3'ss of exon 8
lower sequence: Vv15s0046g02040.t01 (Vitis vinifera), 3'ss of exon 8
-------------------------gtatgttaattacttatattctgagccattaataatttagtgctgctatttgaaccat----tgattctctttcagGCTTACATGTATGGATTTTTTAAGAATAAACGCATAGTACTCTATGACACATTGATTCAGCAG
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caataatttcttgtggtttctcactatatgcttactgatt-taatttgagatataatttttctcttgttgtgtgctaactcatattatgaaaaccatgcagGCCTATATGTATGGATTCTTTAACAACAAGCGGATAGTCCTCTATGACACATTGATTCAGCAGMapped 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|28188098|gb|CB179708.1|CB179708EST: TGAAAAAACTTTTCGTGGTAGATGGGTCTACCAGATCAAGCCACAGTAAT GCTTACATGTATGGATTTTTTAAGAATAAACGCATAGTACTCTATGACACA
genomic: TGAAAAAACTTTTCGTGGTAGATGGGTCTACCAGATCAAGCCACAGTAATgtatgttaat ... tctctttcagGCTTACATGTATGGATTTTTTAAGAATAAACGCATAGTACTCTATGACACA
EST:
gi|33285753|gb|CF075548.1|CF075548EST: TGAAAAAACTTTTCGTGGTAGATGGGTCTGCCAGATCAAGCCACAGTAAT GCTTACATGTATGGATTTTTTAAGAATAAACGCATAGTACTCTATGACACA
genomic: TGAAAAAACTTTTCGTGGTAGATGGGTCTACCAGATCAAGCCACAGTAATgtatgttaat ... tctctttcagGCTTACATGTATGGATTTTTTAAGAATAAACGCATAGTACTCTATGACACA
EST:
gi|28188199|gb|CB179809.1|CB179809EST: TGAAAAAACTTTTCGTGGTAGATGGGTCTACCAGATCAAGCCACAGCAAT GCTTACATGTATGGATTTTTTAAGAATAAACGCATAGTACTCTATGACACA
genomic: TGAAAAAACTTTTCGTGGTAGATGGGTCTACCAGATCAAGCCACAGTAATgtatgttaat ... tctctttcagGCTTACATGTATGGATTTTTTAAGAATAAACGCATAGTACTCTATGACACA
EST:
gi|33770597|gb|CF272891.1|CF272891EST: TGAAAAAACTTTTCGTGGTAGATGGGTCTACCAGATCAAGCCACAGTAAT GCTTACATGTATGGATTTTTTAAGAATAAACGCATAGTACTCTATGACACA
genomic: TGAAAAAACTTTTCGTGGTAGATGGGTCTACCAGATCAAGCCACAGTAATgtatgttaat ... tctctttcagGCTTACATGTATGGATTTTTTAAGAATAAACGCATAGTACTCTATGACACA
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:
48 (upstream exon),
41 (downstream exon)
Score:
8AGTCCTCAGGGAGAAAATAGAGAAGCTGGCAGCTTCCCTCAAATTTCCTTTGAAAAAACTTTTCGTGGTAGATGGGTCTACCAGATCAAGCCACAGTAATgtatgttaat ... tctctttcagGCTTACATGTATGGATTTTTTAAGAATAAACGCATAGTACTCTATGACACATTGATTCAGCAG
Block sizes:
19 (upstream exon),
31 (downstream exon)
Score:
1AGTCCTCAGGGAGAAAATAGAGAAGCTGGCAGCTTCCCTCAAATTTCCTTTGAAAAAACTTTTCGTGGTAGATGGGTCTACCAGATCAAGCCACAGTAATgtatgttaat ... tctctttcagGCTTACATGTATGGATTTTTTAAGAATAAACGCATAGTACTCTATGACACATTGATTCAGCAG
Block sizes:
41 (upstream exon),
42 (downstream exon)
Score:
7AGTCCTCAGGGAGAAAATAGAGAAGCTGGCAGCTTCCCTCAAATTTCCTTTGAAAAAACTTTTCGTGGTAGATGGGTCTACCAGATCAAGCCACAGTAATgtatgttaat ... tctctttcagGCTTACATGTATGGATTTTTTAAGAATAAACGCATAGTACTCTATGACACATTGATTCAGCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attctgagccattaataatttagtgctgctatttgaaccattgattctctttcagGCTTACATGTATGGATTTTTTAAGAATAAACGCATAGTACTCTATGACACATTGATTCAGCAG
ttctctttc CT-rich tract
attaataatttagt TA-rich tract