Sequence
atgc intronic sequence ATGC exonic sequenceAGATGGCTCTGGATTGCTTCTTTGCTGTTTGGTTTGTGGTAGGAAACGTGTGGATCTTTGGAGGGCACTCCTCATCCTCTGAGGCTCCCAACTTGTACAGgtattgtttagtaccatttatcacattttgtcatttccattactcccttctgtgagaactcaacctattctttgcatttcctcatcag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g04280.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os02g54624.1 (Oryza sativa), 5'ss of exon 3
AGATGGCTCTGGATTGCTTCTTTGCTGTTTGGTTTGTGGTAGGAAACGTGTGGATCTTTGGAGGGCACTCCTCATCCTCTGAGGCTCCCAACTTGTACAGgtattgtttagtaccatttatcacattttgtcatttccattactcccttctgtgagaactcaacctattctttgcatttcctcatcag
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AGATGGCCTTGGATTGTTTCTTTGCTGTGTGGTTTGTCGTAGGAAATGTGTGGATATTTGGCGGGCGTTCTTCTGCTGCCGATGCTCCAAACTTGTACAGgtaaatacaaatattttttgtgtggataagatgctccc-ttgatcttgttgctgacttttttccctgccag-----------------
upper sequence: Vv04s0008g04280.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os01g08340.1 (Oryza sativa), 5'ss of exon 4
AGATGGCTCTGGATTGCTTCTTTGCTGTTTGGTTTGTGGTAGGAAACGTGTGGATCTTTGGAGGGCACTCCTCATCCTCTGAGGCTCCCAACTTGTACAGgtattgtttagtaccatttatcacattttgtcatttccattactcccttctgtgagaactcaacctattctttgcatttcctcatcag
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AATTGGCTCTGGATTGTTTCTTTGCTGTGTGGTTTGTTGTTGGGAATGTGTGGATATTCGGGGGCCGTACTTCTCTCCATGACGCTCCTAACTTGTACAGgtctg---tgatgctaagcagccatagacaatgtgttccttgcttctcaacttagatgtttactcatttgttagtgatcatttttcag
upper sequence: Vv04s0008g04280.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G089466_T01 (Zea mays), 5'ss of exon 3
AGATGGCTCTGGATTGCTTCTTTGCTGTTTGGTTTGTGGTAGGAAACGTGTGGATCTTTGGAGGGCACTCCTCATCCTCTGAGGCTCCCAACTTGTACAGgtattgtttagtaccatttatcacattttgtcatttccattactcccttctgtgagaactcaacctattctttgcatttcctcatcag
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AGATGGCCCTGGATTGTTTCTTTGCCGTCTGGTTTGTTGTTGGAAACGTGTGGATATTTGGTGGCCGTTCTTCTGCTGCTGATGCACCGAACTTGTACAGgta--aatgtgaactgctcttcaattgatgagatgtcactatgtcagcttctttatcctgcagctgactttctac---ttcccaccag
upper sequence: Vv04s0008g04280.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA17G30020.1 (Glycine max), 5'ss of exon 3
AGATGGCTCTGGATTGCTTCTTTGCTGTTTGGTTTGTGGTAGGAAACGTGTGGATCTTTGGAGGGCACTCCTCATCCTCTGAGGCTCCCAACTTGTACAGgtattgtttagtaccatttatcacattttgtcatttccattactcccttctgtgagaactcaacctattctttgcatttcctcatcag
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AAATATCTTTAGATTGCTTTTTTGCTGTATGGTTTGTTGTTGGAAATGTATGGATCTTTGGGGGACATTCATCTGTTGAAGAAGCTCCTAATTTGTACAGgtagcctttcat-tcattc-ttgcatttaatc-ttcagattttaagatattatga-aattatatctg--cttcatatctcttgg-cag
upper sequence: Vv04s0008g04280.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: AT4G32600.1 (Arabidopsis thaliana), 5'ss of exon 3
AGATGGCTCTGGATTGCTTCTTTGCTGTTTGGTTTGTGGTAGGAAACGTGTGGATCTTTGGAGGGCACTCCTCATCCTCTGAGGCTCCCAACTTGTACAGgtattgtttagtaccatttatcacattttgtcatttccattactcccttctgtgagaactcaacctattctttgcatttcctcatcag------
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AAATGGCTCTGGATTGCTTCTTTGCGGTGTGGTTTGTGGTAGGTAATGTATGGATATTTGGAGGGCATTCATCTGCTGCCGAGGCTCCTAACTTGTACAGgtgatattcttttagatatacagcaattagactcaaacatcagactgcattttccaagactgacccatatttt-tgttctcttgtatgttctagMapped 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|161720218|gb|FC070870.1|FC070870EST: TGGATCTTTGGAGGGCACTCCTCATCCTCTGAGGCTCCCAACTTGTACAG GTTATGTATAGTCTTTCTTACCTTTAGCTGTATCGGATATGCCATGCCGTT
genomic: TGGATCTTTGGAGGGCACTCCTCATCCTCTGAGGCTCCCAACTTGTACAGgtattgttta ... tcctcatcagGTTATGTATAGTCTTTCTTACCTTTAGCTGTATCGGATATGCCATGCCGTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGATGGCTCTGGATTGCTTCTTTGCTGTTTGGTTTGTGGTAGGAAACGTGTGGATCTTTGGAGGGCACTCCTCATCCTCTGAGGCTCCCAACTTGTACAGgtattgtttagtaccatttatcacattttgtcatttccattactcccttctgtgagaactcaacctattctttgcatttcctcatcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC