Sequence
atgc intronic sequence ATGC exonic sequencegtaagctttccattgtgtgcttagtctggctttcatttgacaaaataatatttattggttgtcttttgcatttttcattttttttcgttcttcccaaatttaactgttaagcttatttttgttgaaccttatctgtatatcaattgaaactaaaccattttgcagGCATATTTTCCTCCTATCTCTCAACCAGAGGGCCTTCCTTTAAGGATTCAGGATGTGAAGGGGAAAGAATGGGTGTTCCAATTCAGGTTTTGGCCCAATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0058g01300.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA01G32810.1 (Glycine max), 3'ss of exon 10
gtaagctttccattgtgtgcttagtctggctttcatttgacaaaataatatttattggttgtcttttgcatttttcattttttttcgttcttcccaaatttaactgttaagcttatttttgttgaaccttatc-tgtatatcaattgaaac--taaaccattttgcagGCATATTTTCCTCCTATCTCTCAACCAGAGGGCCTTCCTTTAAGGATTCAGGATGTGAAGGGGAAAGAATGGGTGTTCCAATTCAGGTTTTGGCCCAATA
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----------------gtaatttatcttaact-catctgttgaactggcatttactg-ttgtc------attttatattaactaacaattctagtaaa---agttgttt------ttcttgatgagtctggtaatttgttaaaactgaaagaggagaccattgtgcagGCATATTTCCCTCCAATCTCTCAACCAGAGGGCCTTCCTTTACGAATCCAAGATGTGAAAGGAAAAGAATGGATGTTTCAATTTAGATTTTGGCCAAATA
upper sequence: Vv08s0058g01300.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA03G04330.1 (Glycine max), 3'ss of exon 7
gtaagctttccattgtgtgcttagtctggctttcatttgacaaaataatatttattgg-ttgtcttttgcatttttcattttttttcgttcttcccaaatttaactgttaagcttatttttgttgaaccttatc-tgtatatcaattgaaa--ctaaaccattttgcagGCATATTTTCCTCCTATCTCTCAACCAGAGGGCCTTCCTTTAAGGATTCAGGATGTGAAGGGGAAAGAATGGGTGTTCCAATTCAGGTTTTGGCCCAATA
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-------------------------------gtaatttatcctaact-catctgttgaactggcctttactgttgtcattttatattaac--taacaattctagtaaaagttatttttcttgacgagtctggtaatttgttaaaactgaaagacgagagcattgtgcagGCATATTTCCCTCCAATCTCTCAACCAGAGGGCCTTCCTTTACGAATCCAAGATGTGAAAGGAAAAGAATGGATGTTTCAGTTTAGATTTTGGCCAAATA
upper sequence: Vv08s0058g01300.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT4G32010.1 (Arabidopsis thaliana), 3'ss of exon 9
gtaagctttccattgtgtgcttagtctggctttcatttgacaaaataatatttattggttgtcttttgcattttt-cattttttttcgttcttcccaaatttaactgttaagcttatttttgttgaaccttatctgtatatcaattgaaactaaaccattttgcagGCATATTTTCCTCCTATCTCTCAACCAGAGGGCCTTCCTTTAAGGATTCAGGATGTGAAGGGGAAAGAATGGGTGTTCCAATTCAGGTTTTGGCCCAATA
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------------------------------------------------------------gtaacttgtttctctgtacgcttatttgatattcccaaact--attgcta----tctaaatgccaggtatcagctata-accgt------ctatgcttctatgtagGCATATTTCCCCCCTATATCTCTACCCGAGGGTCTCCCGTTAAAGATACAAGACATAAAAGGGAAAGAATGGGTGTTCCAGTTCAGGTTTTGGCCTAATA
upper sequence: Vv08s0058g01300.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: PP1S42_132V6.1 (Physcomitrella patens), 3'ss of exon 7
gtaagctttccattgtgtgcttagtctggctttcatttgacaaaataatatttattggttgtcttttgcatttttcattttttttcgttcttcccaaatttaactgttaagcttatttttgt-tgaaccttatctgtatatcaattgaaactaaaccattttgcagGCATATTTTCCTCCTATCTCTCAACCAGAGGGCCTTCCTTTAAGGATTCAGGATGTGAAGGGGAAAGAATGGGTGTTCCAATTCAGGTTTTGGCCCAATA
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--------------------------------------------------------aaccgt-ttagaaattttaggatttgactagttgtttcaacgc---actatacggagcattagtgtatgaggactagctaaagagctcgaggaaata------cttgcagGCATACTTTCCTCCTATCCACCAACCAGAAGGATTGCCCTTACGAATTCAGGATGTCACAGGCAGAGATTGGGTGTTCCAATTCCGCTTTTGGCCCAACAMapped 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|46917866|gb|CN547195.1|CN547195EST: GTGATGCTGGTCGTATTGGTCGTTTAGTGCTCCCAAAAGCATGTGCTGAA GCATATTTTCCTCCTATCTCTCAACCAGAGGGCCTTCCTTTAAGGATTCAG
genomic: GTGATGCTGGTCGTATTGGTCGTTTAGTGCTCCCAAAAGCATGTGCTGAAgtaagctttc ... cattttgcagGCATATTTTCCTCCTATCTCTCAACCAGAGGGCCTTCCTTTAAGGATTCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcttatttttgttgaaccttatctgtatatcaattgaaactaaaccattttgcagGCATATTTTCCTCCTATCTCTCAACCAGAGGGCCTTCCTTTAAGGATTCAGGATGTGAAGGGGAAAGAATGGGTGTTCCAATTCAGGTTTTGGCCCAATA
aactaaa putative branch site (score: 2)
ccatttt CT-rich tract
tatatcaattgaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagctttccattgtgtgcttagtctggctttcatttgacaaaataatatttattggttgtcttttgcatttttcattttttttcgttcttcccaaatttaactgttaagcttatttttgttgaaccttatctgtatatcaattgaaactaaaccattttgcagGCATATTTTCCTCCTATCTCTCAACCAGAGGGCCTTCCTTTAAGGATTCAGGATGTGAAGGGGAAAGAATGGGTGTTCCAATTCAGGTTTTGGCCCAATA
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