Sequence
atgc intronic sequence ATGC exonic sequencegtctgtacctcatcaatattaaatttttttctgattctgacacattgctacaatttagattcaatttacagcacttgtattttacctttctttttgaaggttttcctaagacatggtagcttaagtgtttcaatttactttacgtttatgttcagACTGAACAAATGAGCAGGATTGTTAACGAGCTAGATTCTATCCATTTCTCAATCAAGAAAGCTTCACAGCTGGTCAAGGAAATTGGTAGGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0012g00140.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os06g50120.1 (Oryza sativa), 3'ss of exon 7
gtctgtacctcatcaatattaaatttttttctgattctgacacattgctacaatttagattcaatttacagcacttgtattttacctttctttttgaaggttttcctaag--acatggtagcttaagtgtttcaatttactttacgtttatgttcagACTGAACAAATGAGCAGGATTGTTAACGAGCTAGATTCTATCCATTTCTCAATCAAGAAAGCTTCACAGCTGGTCAAGGAAATTGGTAGGCAG
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-------------------------------------------------------------------gcaggatttctttgttcttctcaaaccagccaatcatgctgtgtaacctggatataccagagctaacttcggttatttcttattgaccagACAGAGCAAATGAGCAGAATTGTTAATGAGCTGGATTCCATTCATTTCTCCATTAAAAAGGCATCACAAATGGTGAAAGAAATTGGTAGGCAG
upper sequence: Vv02s0012g00140.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os06g50120.2 (Oryza sativa), 3'ss of exon 7
gtctgtacctcatcaatattaaatttttttctgattctgacacattgctacaatttagattcaatttacagcacttgtattttacctttctttttgaaggttttcctaag--acatggtagcttaagtgtttcaatttactttacgtttatgttcagACTGAACAAATGAGCAGGATTGTTAACGAGCTAGATTCTATCCATTTCTCAATCAAGAAAGCTTCACAGCTGGTCAAGGAAATTGGTAGGCAG
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-------------------------------------------------------------------gcaggatttctttgttcttctcaaaccagccaatcatgctgtgtaacctggatataccagagctaacttcggttatttcttattgaccagACAGAGCAAATGAGCAGAATTGTTAATGAGCTGGATTCCATTCATTTCTCCATTAAAAAGGCATCACAAATGGTGAAAGAAATTG--------
upper sequence: Vv02s0012g00140.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G065105_T02 (Zea mays), 3'ss of exon 7
gtctgtacctcatcaatattaaatttttttctgattctgacacattgctacaatttagattcaatttacagcacttgtattttacctttctttttgaaggttttcctaagacatggtagcttaag--tgtttcaatttactttacgtttatgttcagACTGAACAAATGAGCAGGATTGTTAACGAGCTAGATTCTATCCATTTCTCAATCAAGAAAGCTTCACAGCTGGTCAAGGAAATTGGTAGGCAG
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-----------------------------------------------gtacgtttcttttcttatttccagaaggaatccattgctttattat------gttgtcc--aatcaggaaagctaaaggcaattttgggctattccttcttcat---cagACAGAACAAATGAGCAGAGTTGTTAATGAGTTGGATTCCATCCATTTCTCCATCAAAAAGGCATCTCAATTGGTGAAAGAAATCGGTCGACAG
upper sequence: Vv02s0012g00140.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G065105_T05 (Zea mays), 3'ss of exon 1
gtctgtacctcatcaatattaaatttttttctgattctgacacattgctacaatttagattcaatttacagcacttgtattttacctttctttttgaaggttttcctaagacatggtagcttaag--tgtttcaatttactttacgtttatgttcagACTGAACAAATGAGCAGGATTGTTAACGAGCTAGATTCTATCCATTTCTCAATCAAGAAAGCTTCACAGCTGGTCAAGGAAATTGGTAGGCAG-------
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-----------------------------------------------gtacgtttcttttcttatttccagaaggaatccattgctttattat------gttgtcc--aatcaggaaagctaaaggcaattttgggctattccttcttcat---cagACAGAACAAATGAGCAGAGTTGTTAATGAGTTGGATTCCATCCATTTCTCCATCAAAAAGGCATCTCAATTGGTGAAAGAAATCGGTCGACAGGTAAATT
upper sequence: Vv02s0012g00140.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA05G05720.1 (Glycine max), 3'ss of exon 4
gtctgtacctcatcaatattaaatttttttctgattctgacacattgctacaatttagattcaatttacagcacttgtattttacctttctttttgaaggttttcctaagacatggtagcttaagtgtttcaatttactttacgtttatgttcagACTGAACAAATGAGCAGGATTGTTAACGAGCTAGATTCTATCCATTTCTCAATCAAGAAAGCTTCACAGCTGGTCAAGGAAATTGGTAGGCAG
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----------------------------------------------------gtatgaatcttatgcctagt-cccacacctcagaatcaactgagaaaaaaagcttga-atttgccatgtgaactaag--ggtacactct---tctatgtctagACAGAACAAATGAGTAGAGTTGTCAATGAGCTGGATTCAATCCATTTCTCTATGAAGAAAGCCTCTAAATTGGTCAAGGAAATTGGTAGGCAG
upper sequence: Vv02s0012g00140.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA17G15990.1 (Glycine max), 3'ss of exon 7
gtctgtacctcatcaatattaaatttttttctgattctgacacattgctacaatttagattcaatttacagcacttgtattttacctttctttttgaaggttttcctaagacatggtagcttaagtgtttcaatttactttacgtttatgttcagACTGAACAAATGAGCAGGATTGTTAACGAGCTAGATTCTATCCATTTCTCAATCAAGAAAGCTTCACAGCTGGTCAAGGAAATTGGTAGGCAG
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----------------------------------------------gtatgaatcttaagcctagtcccacaccccagaattaa---ttgagaaaaaaagcttgagtttgccatgggaactaagg-------gttcactct---tctatgtctagACGGAACAAATGAGCAGAGTTGTCAATGAGCTGGATTCAATCCATTTCTCTATAAAGAAAGCCTCTAAATTGGTCAAGGAAATCGGTAGGCAG
upper sequence: Vv02s0012g00140.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA05G05720.2 (Glycine max), 3'ss of exon 4
gtctgtacctcatcaatattaaatttttttctgattctgacacattgctacaatttagattcaatttacagcacttgtattttacctttctttttgaaggttttcctaagacatggtagcttaagtgtttcaatttactttacgtttatgttcagACTGAACAAATGAGCAGGATTGTTAACGAGCTAGATTCTATCCATTTCTCAATCAAGAAAGCTTCACAGCTGGTCAAGGAAATTGGTAGGCAG
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----------------------------------------------------gtatgaatcttatgcctagt-cccacacctcagaatcaactgagaaaaaaagcttga-atttgccatgtgaactaag--ggtacactct---tctatgtctagACAGAACAAATGAGTAGAGTTGTCAATGAGCTGGATTCAATCCATTTCTCTATGAAGAAAGCCTCTAAATTGGTCAAGGAAATTG--------
upper sequence: Vv02s0012g00140.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT2G35190.1 (Arabidopsis thaliana), 3'ss of exon 6
gtctgtacctcatcaatattaaatttttttctgattctgacacattgctacaatttagattcaatttacagcacttgtattttacctttctttttgaaggttttcctaagacatggtagcttaagtgtttcaatttactttacgtttatgttcagACTGAACAAATGAGCAGGATTGTTAACGAGCTAGATTCTATCCATTTCTCAATCAAGAAAGCTTCACAGCTGGTCAAGGAAATTGGTAGGCAG
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gtgtgtagttagcccacacttgtttctttccaaacagtc-----ctgcttctacctgaatctcattttt--ttccaagattgtgtatttgtgtgtgaa-----ttctgagaattattaagata---gtttacattttcctt--------gttcagACCGAGCAAATGAGTAGAGTTGTCAATGAGCTCGATTCTATTCATTTCTCACTCAAGAAAGCCTCCAAGCTGGTCAAGGAAATTGGTAGGCAGMapped 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|110391414|gb|EC956389.1|EC956389EST: AAGATACAGTTAATGTTGGAACAGAAACTGCAGCAGCTCTCAAGTCGCAG ACTGAACAAATGAGCAGGATTGTTAACGAGCTAGATTCTATCCATTTCTCA
genomic: AAGATACAGTTAATGTTGGAACAGAAACTGCAGCAGCTCTCAAGTCGCAGgtctgtacct ... ttatgttcagACTGAACAAATGAGCAGGATTGTTAACGAGCTAGATTCTATCCATTTCTCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttcctaagacatggtagcttaagtgtttcaatttactttacgtttatgttcagACTGAACAAATGAGCAGGATTGTTAACGAGCTAGATTCTATCCATTTCTCAATCAAGAAAGCTTCACAGCTGGTCAAGGAAATTGGTAGGCAG
tttcaatttacttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctgtacctcatcaatattaaatttttttctgattctgacacattgctacaatttagattcaatttacagcacttgtattttacctttctttttgaaggttttcctaagacatggtagcttaagtgtttcaatttactttacgtttatgttcagACTGAACAAATGAGCAGGATTGTTAACGAGCTAGATTCTATCCATTTCTCAATCAAGAAAGCTTCACAGCTGGTCAAGGAAATTGGTAGGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA