Sequence
atgc intronic sequence ATGC exonic sequence...gcttgaagtttgtattttagtctgtatgttagcatatgcaatttttaaatatgccatctccaattctagagcatatgaatatgtgttgttgatttatcagGTATCTCTTATGTACGGTAGGATCTGTATATATCAAATCAAAGGAGGCTCCTCCTAAGGATGTCCTTAAAGATCTTGTGGAAATGTGCCGTGGTATTCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g14680.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os03g58700.1 (Oryza sativa), 3'ss of exon 3
gcttgaagtttgtattttagtctgtatgttagcatatgcaatttttaaatatgccatctccaattctaga-gcatatgaatatgtgttgttgatttatcagGTATCTCTTATGTACGGTAGGATCTGTATATATCAAATCAAAGGAGGCTCCTCCTAAGGATGTCCTTAAAGATCTTGTGGAAATGTGCCGTGGTATTCAA
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-aatcatgcttgcatgtacaatgggatgtgattttgactcatttgaaattgctgaagaactgttatggtatgaacctgatttggtgttgttcatgtcctagCTATCTCCTCTGCACAGTAGGATCTGTGTACATTAAATCAAAAGAGGCTCCTGCGAAAGACGTTCTTAAAGACCTTGTTGAAATGTGTCGAGGCATCCAA
upper sequence: Vv18s0001g14680.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM5G825524_T02 (Zea mays), 3'ss of exon 3
-gcttgaagtttgtattttagtctgtatgttagcatatgcaatttttaaatatgccatctccaattctagagcatatgaat---atgtgttgttgatttatcagGTATCTCTTATGTACGGTAGGATCTGTATATATCAAATCAAAGGAGGCTCCTCCTAAGGATGTCCTTAAAGATCTTGTGGAAATGTGCCGTGGTATTCAA
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ctcttgaacatc----tatgaaatttatgaagagctaatcttttttcaaggataatacctatgatttatgaaaacatacatctgatttggtgtttacatgccagCTATCTCCTGTGCACGGTGGGATCTGTGTACATCAAATCGAAAGAGGCTCCTGCTAAAGATGTTCTTAAAGATCTCGTTGAAATGTGCCGAGGCATTCAG
upper sequence: Vv18s0001g14680.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM5G844195_T02 (Zea mays), 3'ss of exon 3
--gcttgaagtttgtattttagtctgtatgttagcatatgcaatttttaaatatgccatctccaattctagagcatatgaat---atgtgttgttgatttatcagGTATCTCTTATGTACGGTAGGATCTGTATATATCAAATCAAAGGAGGCTCCTCCTAAGGATGTCCTTAAAGATCTTGTGGAAATGTGCCGTGGTATTCAA
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gctcttgaa---catctatgaaact-tgtga-agaactgatcttcttctaggagaatacctatgatttatgaaaacatacatcttatttggtgtttacatgccagCTATCTCCTGTGCACGGTGGGGTCTGTGTACATCAAATCGAAAGAGGCTCCTGCTAAAGATGTTCTTAAAGATCTCGTTGAAATGTGCCGAGGCATTCAA
upper sequence: Vv18s0001g14680.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA14G40270.1 (Glycine max), 3'ss of exon 3
gcttgaagtttgtattttagtctgtatgttagcatatgcaatttttaaatatgccatctccaattctagagcatatgaatatgtgttgttgatttatcagGTATCTCTTATGTACGGTAGGATCTGTATATATCAAATCAAAGGAGGCTCCTCCTAAGGATGTCCTTAAAGATCTTGTGGAAATGTGCCGTGGTATTCAA
|| | |||| | || | | ||| || || | | ||||| | || ||||| | || | | |||||||||| | || |||||||||||||| ||| ||| || ||||| ||||| |||||||| ||||||||||| ||||| ||||| |||| | |||||
-------gtaagcgttttttgcgcccaattttttttttttattgttgcttac-caaatgccaatgttcctgcttatgatttgaacttaatttactgccagGTATCTCCTTTGCACGGTAGGATCTGTTTATCTCAGATGCAAGGATGCTCCAGTAAAGGATGTTCTTAAAGATCTAGTGGAGATGTGTCGTGCTGTTCAA
upper sequence: Vv18s0001g14680.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G75850.1 (Arabidopsis thaliana), 3'ss of exon 3
---------------------------------------------------gcttgaagtttgtattttagtctgtatgttagcatatgcaatttttaaatatgcca----tctccaattctagagcatatgaatatgtgttgttgatttatcagGTATCTCTTATGTACGGTAGGATCTGTATATATCAAATCAAAGGAGGCTCCTCCTAAGGATGTCCTTAAAGATCTTGTGGAAATGTGCCGTGGTATTCAA
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gtaagctgattcatcattgagctagtttctattcctcttgatctgataaagatctaatactctcaatcctctagctatat-agcctagattagactagaaaatggcaatctcctcctatattaatgtttctct-tgggctgcattgatttaccagGTATCTGCTATGTACGGTCGGGTCTGTTTATATCAAAAGTAAGCAGGCTCCTTCGAAGGATGTACTTAAGGATCTTGTGGAAATGTGTCGAGGTGTTCAAMapped 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|71863957|gb|DT013012.1|DT013012EST: ATTGATCTGTATGAGCTAGTTCAGCATGCCGGAAACATATTGCCTAGACT GTATCTCTTATGTACGGTAGGATCTGTATATATCAAATCAAAGGAGGCTCC
genomic: ATTGATCTGTATGAGCTAGTTCAGCATGCCGGAAACATATTGCCTAGACTgtaagtttga ... gatttatcagGTATCTCTTATGTACGGTAGGATCTGTATATATCAAATCAAAGGAGGCTCC
EST:
gi|161711457|gb|FC061222.1|FC061222EST: ATTGATCTGTATGAGCTAGTTCAGCATGCCGGAAACATATGGCCTAGACT GTATCTCTTATGTACGGTAGGATCTGTATATATCAAATCAAAGGAGGCTCC
genomic: ATTGATCTGTATGAGCTAGTTCAGCATGCCGGAAACATATTGCCTAGACTgtaagtttga ... gatttatcagGTATCTCTTATGTACGGTAGGATCTGTATATATCAAATCAAAGGAGGCTCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaatatgccatctccaattctagagcatatgaatatgtgttgttgatttatcagGTATCTCTTATGTACGGTAGGATCTGTATATATCAAATCAAAGGAGGCTCCTCCTAAGGATGTCCTTAAAGATCTTGTGGAAATGTGCCGTGGTATTCAA
tgttgat putative branch site (score: 4)
atatgaatat TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcttgaagtttgtattttagtctgtatgttagcatatgcaatttttaaatatgccatctccaattctagagcatatgaatatgtgttgttgatttatcagGTATCTCTTATGTACGGTAGGATCTGTATATATCAAATCAAAGGAGGCTCCTCCTAAGGATGTCCTTAAAGATCTTGTGGAAATGTGCCGTGGTATTCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - -ctgtatg
- - - - - - - - - - - - - - - -gcatatg
- - - - - - - - - - - - - - - - catatgc