Sequence
atgc intronic sequence ATGC exonic sequencegttagattgtaattcaacattttgtatatatatgcacagtcattgatatatatcaatacaagtatgaacccatgtgttttactatctaattcctatgaatacatgaatcattggtggaagcatgcaggtgcattttcatgccttttttaactggcttgtgtttgaattttgtttgctttatagGAGCTTTTGATGGCGTTCTTGAGCTTCTGGTTCGAGCAGGCAGAAGTCTCCCCGAAGCTGTCATGATGATGATACCTGAAGCATGGCAAAATGACAAGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0055g00620.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA14G32500.1 (Glycine max), 3'ss of exon 9
gttagattgtaattcaacattttgtatatatatgcacagtcattgatatatatcaatacaagtatgaacccatgtgttttactatctaattcctatgaatacatgaatcattggtggaagcatgcaggtgcattttcatgccttttttaactggcttgtgtttgaattttgtttgctttatagGAGCTTTTGATGGCGTTCTTGAGCTTCTGGTTCGAGCAGGCAGAAGTCTCCCCGAAGCTGTCATGATGATGATACCTGAAGCATGGCAAAATGACAAGAA
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------------------------------------------------------------------------------------gtgaaattttatctgaatgttaattatt------agcacactagactatggtcata---tactgaatc--ctaaagggtagattttcttt----tgtagGAGCTTTTGATGGTGTGCTTGAGTTTTTGCTTCATTCGGGAAAAAGTCTTCCTGAAGCTGTTATGATGATGATTCCTGAAGCATGGCAAAATGACAAGAA
upper sequence: Vv12s0055g00620.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA06G13280.1 (Glycine max), 3'ss of exon 9
gttagattgtaattcaacattttgtatatatatgcacagtcattgatatatatcaatacaagtatgaacccatgtgttttactatctaattcctatgaatacatgaatc-attggtggaagcatgcaggtgcattttcatgccttttttaactggcttgtgtttgaattttgtttgctttatagGAGCTTTTGATGGCGTTCTTGAGCTTCTGGTTCGAGCAGGCAGAAGTCTCCCCGAAGCTGTCATGATGATGATACCTGAAGCATGGCAAAATGACAAGAA
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-------------------------------------------------------------------------------------gtgatattt-----tatctgaatttatttttgtgtac---cagat--atgttcataacttcatttactaattatagttt---------ttcttctgcagGAGCTTTTGATGGTGTCCTTGAGTTTTTGATTCAGTCTGGAAAAAGTCTTCCTGAAGCTGTTATGATGATGATTCCTGAAGCATGGCAAAATGACAAGAA
upper sequence: Vv12s0055g00620.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA04G41540.1 (Glycine max), 3'ss of exon 9
gttagattgtaattcaacattttgtatatatatgcacagtcattgatatatatcaatacaagtatgaacccatgtgttttactatctaattcctatgaatacatgaatcattggtggaagcatgcaggtgcattttcatgccttttttaactggcttgtgtttgaattttgtttgctttatagGAGCTTTTGATGGCGTTCTTGAGCTTCTGGTTCGAGCAGGCAGAAGTCTCCCCGAAGCTGTCATGATGATGATACCTGAAGCATGGCAAAATGACAAGAA
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------------------------------------------------------------------------------gtgatattttatc----tgaatttatttttgtgttgcagaaatgttca--taaattcatatactaattatagct-------------------tttcttctgcagGAGCTTTTGATGGTGTGCTTGAGTTTTTGATTCAGTCTGGAAAAAGTCTCCCTGAAGCTGTTATGTTGATGATTCCTGAAGCATGGCAAAATGACAACAA
upper sequence: Vv12s0055g00620.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA19G16450.1 (Glycine max), 3'ss of exon 5
gttagattgtaattcaacattttgtatatatatgcacagtcattgatatatatcaatacaagtatgaacccatgtgttttactatctaattcctatgaatacatgaatcattggtggaagcatgcaggtgcattttcatgccttttttaactggcttgtgtttgaattttgtttgctttatagGAGCTTTTGATGGCGTTCTTGAGCTTCTGGTTCGAGCAGGCAGAAGTCTCCCCGAAGCTGTCATGATGATGATACCTGAAGCATGGCAAAATGACAAGAA
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-----------------------------------------------------------------------------------gtgaaattt-------tatctgaatcttatttattagcacactagactatggtcatat--------actgaatcctaat-gggtagtttttcttttgcagGAGCTTTTGATGGTGTGCTTGAGTTTTTGCTTCATTCGGGAAAAAGTCTTCCTGAAGCTGTTATGATGATGATTCCTGAAGCGTGGCAAAATGACAAGAAMapped 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|110364023|gb|EC927662.1|EC927662EST: TGAGATGAGGAAGCTTCTACCCATTGTAGATGCCAGCTCATTTGATTCAG GAGCTTTTGATGGCGTTCTTAAGCTTCTGGTTCAAGCAGGCAGAAGTCTCC
genomic: TGAGATGAGGAAGCTTCTACCCATTGTAGATGCCAGCTCATCTCATTCAGgttagattgt ... tgctttatagGAGCTTTTGATGGCGTTCTTGAGCTTCTGGTTCGAGCAGGCAGAAGTCTCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcattttcatgccttttttaactggcttgtgtttgaattttgtttgctttatagGAGCTTTTGATGGCGTTCTTGAGCTTCTGGTTCGAGCAGGCAGAAGTCTCCCCGAAGCTGTCATGATGATGATACCTGAAGCATGGCAAAATGACAAGAA
ttttaac putative branch site (score: 2)
ttttgttt putative PPT
tttgaattttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagattgtaattcaacattttgtatatatatgcacagtcattgatatatatcaatacaagtatgaacccatgtgttttactatctaattcctatgaatacatgaatcattggtggaagcatgcaggtgcattttcatgccttttttaactggcttgtgtttgaattttgtttgctttatagGAGCTTTTGATGGCGTTCTTGAGCTTCTGGTTCGAGCAGGCAGAAGTCTCCCCGAAGCTGTCATGATGATGATACCTGAAGCATGGCAAAATGACAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC