Sequence
atgc intronic sequence ATGC exonic sequenceTTGATGGGCTTTTGGGGAAGCACTGGAGGAATGTAGGCCTACTTTTCAACTGCACTTTCCTTCTCTTTGGCTCCGTGATACAGCTGATTGCCTGTGCAAGgtaaacccaaaaggggaaaggaaaaatcattacaatgtacattatatttctgtttggacagacgaatacatcatgtatacatactggttaatttttcctcaatttccattgatatgctgcag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g03540.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G045057_T02 (Zea mays), 5'ss of exon 3
TTGATGGGCTTTTGGGGAAGCACTGGAGGAATGTAGGCCTACTTTTCAACTGCACTTTCCTTCTCTTTGGCTCCGTGATACAGCTGATTGCCTGTGCAAGgtaaac-----------ccaaaaggggaa------aggaaaaatcat-tacaatgtacattat--atttctgtttggacagacgaatacatcatgtatacatactggttaatttttcctcaatttccattgatatgctgcag----------------------------------------------
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TGGATGGGCTACTGGGGAAGCACTGGAGGAACGTCGGCCTCTTCTTCAACTGCACTTTCCTCCTCTTCGGCTCCGTCATCCAGCTCATCGCATGTGCAAGgtaatcatccattcatgcctacattcgcatccatcgataaaactcatatacaattaacacaatcaaagcttttcctaattaataactgcaagcattaaaagtgtagtgtaatcgatcttgtaattacgctctgatctagctacctatatatgagtgatccatggatcgatatatacatatatgagcag
upper sequence: Vv18s0001g03540.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA06G11540.1 (Glycine max), 5'ss of exon 4
TTGATGGGCTTTTGGGGAAGCACTGGAGGAATGTAGGCCTACTTTTCAACTGCACTTTCCTTCTCTTTGGCTCCGTGATACAGCTGATTGCCTGTGCAAGgtaaacccaaaaggggaaaggaaaaatcattacaatgt-acattatat-ttctgtttggacagacgaatacatcatgtatacatactggttaatttttcctcaatttccattgatatgctgcag
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TTGATGGACTTTTGGGCAAACACTGGAGGAATCTTGGTCTTTTTTTCAACTGTACTTTCCTTCTGTTTGGATCAGTAATTCAACTAATTGCTTGTGCAAGgtaagac----agtagtagatcatgattttcttaatattgcattataaactaagtttatatatacaacaatattgtttcag-------------------------------------------
upper sequence: Vv18s0001g03540.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA04G43150.2 (Glycine max), 5'ss of exon 4
TTGATGGGCTTTTGGGGAAGCACTGGAGGAATGTAGGCCTACTTTTCAACTGCACTTTCCTTCTCTTTGGCTCCGTGATACAGCTGATTGCCTGTGCAAGgtaaacccaaaaggggaaaggaaaaatcattacaatgtacattatatttctgtttggacagacgaatacatcatgtatacatactggttaatttttcctcaatttccattgatatgctgcag
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TTGATGGACTTTTGGGCAAACACTGGAGAAATCTTGGTCTTTTTTTCAACTGTACTTTCCTTCTGTTTGGATCAGTAATTCAACTAATTGCTTGTGCAAGgtaagac--agtagatcatgcttttttgaatattatatatataatctgtatatttcatca------taaactgagaatttatattgtttcag------------------------------
upper sequence: Vv18s0001g03540.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: AT1G77690.1 (Arabidopsis thaliana), 5'ss of exon 3
TTGATGGGCTTTTGGGGAAGCACTGGAGGAATGTAGGCCTACTTTTCAACTGCACTTTCCTTCTCTTTGGCTCCGTGATACAGCTGATTGCCTGTGCAAGgtaaacccaaaaggggaaaggaaaaatcattacaatgtacattatatttctgtttggacagacgaatacatcatgtatacatactggttaatttttcctcaatttccattgatatgctgcag
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TAGATGGATTGTTGGGGAAACATTGGAGGAACCTTGGATTGATCTTTAACTGCACTTTTCTTCTCTTTGGATCTGTTATTCAGCTCATTGCTTGTGCTAGgtaaatt----------aataatcaatgttcattttctttattatatggttttttcatattgaaaattaatta-atataaaaaatgatttgcag----------------------------
upper sequence: Vv18s0001g03540.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: PP1S90_46V6.1 (Physcomitrella patens), 5'ss of exon 3
TTGATGGGCTTTTGGGGAAGCACTGGAGGAATGTAGGCCTACTTTTCAACTGCACTTTCCTTCTCTTTGGCTCCGTGATACAGCTGATTGCCTGTGCAAGgtaaac----ccaaaaggggaaaggaaaaatcattacaatgtacattatatttctgtttggacagacgaatacatcatgtatacatactggttaatttttcctcaatttccattgatatgctgcag
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TGGATGGGTTGCTGGGTCGCAACTGGAAGATAGTCGGTCTTGTTTTCAACTGCACCTTCCTTCTCTTTGGAGCAGTCATCCAGCTCATTGCCTGCGCCAGgtatgtgtcgctcccaaacctaatcgtcaactatttgaaaggac--tatgagtcactctcgacaagcagttacatattct--------taattaggtcttctagagaaag----------------
upper sequence: Vv18s0001g03540.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: EFJ36050 (Selaginella moellendorffii), 5'ss of exon 3
TTGATGGGCTTTTGGGGAAGCACTGGAGGAATGTAGGCCTACTTTTCAACTGCACTTTCCTTCTCTTTGGCTCCGTGATACAGCTGATTGCCTGTGCAAGgtaaacccaaaaggggaaaggaaaaatcattacaatgtacattatatttctgtttggacagacgaatacatcatgtatacatactggttaatttttcctcaatttccattgatatgctgcag
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TCGATGGTCTCTTGGGACCATACTGGAAGGCCGCTGGATTCACTTTTAACTGTACATTTCTTCTCTTTGGCTCGGTGATTCAGCTCATTGCGTGTGGAAGgtaagctcaa---------gttcaagttctcgaga-gaaggaaacaaaaaagaagagagaagcaagttggttcttcactggcactaacatcttctccccttctttacag-------------
upper sequence: Vv18s0001g03540.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: EFJ18760 (Selaginella moellendorffii), 5'ss of exon 3
TTGATGGGCTTTTGGGGAAGCACTGGAGGAATGTAGGCCTACTTTTCAACTGCACTTTCCTTCTCTTTGGCTCCGTGATACAGCTGATTGCCTGTGCAAGgtaaacccaaaaggggaaaggaaaaatcattacaatgtacattatatttctgtttggacagacgaatacatcatgtatacatactggttaatttttcctcaatttccattgatatgctgcag
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TCGATGGTCTCTTGGGACCATACTGGAAGGCCGCTGGATTCACTTTTAACTGTACATTTCTTCTCTTTGGCTCGGTGATTCAGCTCATTGCGTGTGGAAGgtaagctcaag------ttcaagttctcgagaaaaggaaaagaaaa---------aaagagagaagtaagttggttcttcattggcactaacatcttctccctttcgttacag---------
upper sequence: Vv18s0001g03540.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: EFJ34222 (Selaginella moellendorffii), 5'ss of exon 3
TTGATGGGCTTTTGGGGAAGCACTGGAGGAATGTAGGCCTACTTTTCAACTGCACTTTCCTTCTCTTTGGCTCCGTGATACAGCTGATTGCCTGTGCAAGgtaaacccaaaaggggaaaggaaaaatcattacaatgtacattatatttc---tgtttggacagacgaatacatcatgtatacatactggttaatttt---tcctcaatttccattgatatgc--tgcag
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TGGATGGCTTGCTCGGGCCTTACTGGAAAGCGATAGGATTCGGGTTTAACTGCACCTTCTTGCTCTTTGGCTCCGTGATTCAGCTCATCGCCTGTGCGAGgtacgtc-gatatcccagcaaatgccttgctgcggcatctggtgtttgtgggatgtttcctcttctaagttccctttcaaaggactgtttctgatttgaaactcttgggctcgcttgttttctcttgcag
upper sequence: Vv18s0001g03540.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: EFJ21839 (Selaginella moellendorffii), 5'ss of exon 3
TTGATGGGCTTTTGGGGAAGCACTGGAGGAATGTAGGCCTACTTTTCAACTGCACTTTCCTTCTCTTTGGCTCCGTGATACAGCTGATTGCCTGTGCAAGgtaaacccaaaag--gggaaaggaaaaatcattaca----atgtacattatatttctgtttggacagacgaatacatcatgtatacatactggttaatttttcctcaatttccat-tgatatgctgcag
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TGGATGGCTTGCTCGGGCCTTACTGGAAAGCGATAGGATTCGGTTTTAACTGCACCTTCTTGCTCTTTGGCTCCGTGATTCAGCTCATCGCCTGTGCGAGgtacgtcgatatcccagcaaatgccttgctgcggcatctggtgtttgtgggatgtatcctcttctaagttccctttcaaaggactgtttctgatttgaagctcttgggctcgcttgttttctcttgcagMapped 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|294965879|gb|GW837362.1|GW837362EST: TGCACTTTCCTTCTCTTTGGCTCCGTGATACAGCTGATTGCCTGTGCAAG CAACATCTACTACATAAATGACAATTTCGACAAGAGAACTTGGACGTACAT
genomic: TGCACTTTCCTTCTCTTTGGCTCCGTGATACAGCTGATTGCCTGTGCAAGgtaaacccaa ... tatgctgcagCAACATCTACTACATAAATGACAATTTCGACAAGAGAACTTGGACGTACAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTGATGGGCTTTTGGGGAAGCACTGGAGGAATGTAGGCCTACTTTTCAACTGCACTTTCCTTCTCTTTGGCTCCGTGATACAGCTGATTGCCTGTGCAAGgtaaacccaaaaggggaaaggaaaaatcattacaatgtacattatatttctgtttggacagacgaatacatcatgtatacatactggttaatttttcctcaatttccattgatatgctgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT