Sequence
atgc intronic sequence ATGC exonic sequenceGTGAAAAAAGGAAGAAGCTGGAGGAAGAGAAGGGCATTATCATTCGCTTTGTCATTGGTCATAGgtgagtggttaattctcttcccaaactactggataagtaaatgcctatattttacttgactatcctgttctttgcgtgacatgctaagcctcttctctaa...
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0059g00640.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: LOC_Os03g38050.1 (Oryza sativa), 5'ss of exon 5
GTGAAAAAAGGAAGAAGCTGGAGGAAGAGAAGGGCATTATCATTCGCTTTGTCATTGGTCATAGgtgagtg-------gttaattctcttcccaaactac--------tggataagtaaatgcctatattttacttgactat----------cctgttct--ttgcgtgacatgctaagcctcttctctaa----------------------------------------
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GTGAAAAAAGAAGGAAGCTTGAGGAAGAAAAGGGAATTATCATCCGATTCGTCATTGGTCATAGgttagtgcaagaaaacatgtactttgggcgatctgtatggacaatagttaagggagagtttctattatattagacaaaagagttagtaccagttatgattcagcaatgtcagaagacgatatcttgagctcacagaatctgaaattttaacctttctaaattgacag
upper sequence: Vv12s0059g00640.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: LOC_Os02g06840.2 (Oryza sativa), 5'ss of exon 6
GTGAAAAAAGGAAGAAGCTGGAGGAAGAGAAGGGCATTATCATTCGCTTTGTCATTGGTCATAGgtg-agtggttaattctcttcccaaactactggataagtaaatgcctatattttacttgactatcctgttctttgcgtgaca---tgctaagcc--tcttctctaa
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GTGAAAAAAGGAAGAAGCTTGAAGAAGAGAAGGGGATCATCATTCGTTTCGTCATTGGCCACAGgtacaaagaacgtgttgcatttttcagtactcagtagtcatggttccttattttgattttggtttctgttattgacaaaacaactcactcattccatgtcttccag
upper sequence: Vv12s0059g00640.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM2G080231_T01 (Zea mays), 5'ss of exon 5
GTGAAAAAAGGAAGAAGCTGGAGGAAGAGAAGGGCATTATCATTCGCTTTGTCATTGGTCATAGgtgagtggttaattctcttcccaaactactggataa----gtaaatgcctatatt-ttacttgactatcctgttctttgcgtg-acatgctaagcctcttctctaa--------------
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GCGAGAAGAGGAGGACGATGGAGGAAGAGAAGGGCATCGTCATTCGGTTCGTCATCGGCCACAGgtgagtgagtagttcatatatgtgactgaaagacgacctgacagctctctacgctgttagttactgattcagaaaaaggaaaacaaaaacaaaactgttgttctgctgccatccacgcag
upper sequence: Vv12s0059g00640.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA12G31980.1 (Glycine max), 5'ss of exon 5
GTGAAAAAAGGAAGAAGCTGGAGGAAGAGAAGGGCATTATCATTCGCTTTGTCATTGGTCATAGgtgagt--ggttaattctcttcccaaactactg-gat---aa--gtaaatgcctatattttacttgactatcctgttctttgcgtgacatgctaagcctcttctctaa--------------------------------------------------------------------------------------
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GTGAGAAAAGAAAGAAGCTAGAGGAAGAAAAGGGAATTATCATCCGATTTGTAATTGGTCATAGgtaagccatgccaactatctcttgtatgtattttgatctcaattgtaaatgcc-atcatttagttg-ccattatgtgacatatccaagaagcataatatactatttgatacagataccgttgtggttcatctgtgagtattattagtatggaatgaattgtaaattgaacttttttctttctttctttcaccag
upper sequence: Vv12s0059g00640.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA13G38500.1 (Glycine max), 5'ss of exon 5
GTGAAAAAAGGAAGAAGCTGGAGGAAGAGAAGGGCATTATCATTCGCTTTGTCATTGGTCATAGgtgag--tggttaattctcttcccaaa---ctactggataagt---aaatgcctatattttacttgactatcctgttctttgcgtga--catgctaagcctcttctctaa--------------------------------------------------------------------------------------
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GTGAGAAAAGAAAGAAATTAGAGGAAGAGAAGGGCATTATCATCCGATTTGTAATTGGTCATAGgtaagctttctcagctctctttccacgactttattgcataaatgccaactctcttgccatcatttaattgtttttatgtatccaagaagtataatatactatttaattcagatactattgtttgtggtttatctgatagtcatatttatattgaatgaattgtaaattgaacattttgctttctttctttcaccag
upper sequence: Vv12s0059g00640.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: AT2G32430.1 (Arabidopsis thaliana), 5'ss of exon 5
GTGAAAAAAGGAAGAAGCTGGAGGAAGAGAAGGGCATTATCATTCGCTTTGTCATTGGTCATAGgtgagtggttaattctcttcccaaactactggataagtaaatgcctatattttacttgactatcctgttctttgcgtga--catgctaagcctcttctctaa------------------
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GTGAGAAAAGAAAGAAGTTGGAAGAAGAGAAGGGAATTATTATACGGTTTGTGATTGGTCATAGgtgagagtttgaatcttttagtataatgtcagatatcgaatcaaccacaatgttcttacata----gtttctgagatgattcatactcagtgttaattttatttggcattggttctttag
upper sequence: Vv12s0059g00640.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: AT1G05170.2 (Arabidopsis thaliana), 5'ss of exon 5
GTGAAAAAAGGAAGAAGCTGGAGGAAGAGAAGGGCATTATCATTCGCTTTGTCATTGGTCATAGgtgagtggttaattctcttcccaaactactggataagtaaatgcctatattttacttgactatcctgttctttgcgtgacatgctaagcctcttctctaa
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GTGAAAAAAGGAAGAGACTAGAAGAGGAGAAGGGGATTATCATCCGGTTTGTCATTGGTCACAGgtgaa-gttttgttttcttt---agtttctg---atgtgagt--------ttcattttggttctctgtatactg-atgatgtg-tgtcattgttctatagMapped 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|30137885|gb|CB923223.1|CB923223EST: AAGCTGGAGGAAGAGAAGGGCATTATCATTCGCTTTGTCATTGGTCATAG TGCCACATCAGGGGGTATACTGGACAGAGCTATCGAAGCAGAGGACAAAAA
genomic: AAGCTGGAGGAAGAGAAGGGCATTATCATTCGCTTTGTCATTGGTCATAGgtgagtggtt ... catcactcagTGCCACATCAGGGGGTATACTGGACAGAGCTATCGAAGCAGAGGACAAAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTGAAAAAAGGAAGAAGCTGGAGGAAGAGAAGGGCATTATCATTCGCTTTGTCATTGGTCATAGgtgagtggttaattctcttcccaaactactggataagtaaatgcctatattttacttgactatcctgttctttgcgtgacatgctaagcctcttctctaa
- - - - - - - AAGCTG
- - - - - - - - GCTGGA
- - - - - - - - - TGGAGG
- - - - - - - - - GGAGGA
- - - - - - - - - - - GGAAGA
- - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctcttcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aagtaaa