Sequence
atgc intronic sequence ATGC exonic sequenceGATGCTAGGAAGGGTGTCTTATTCATTGACTTCCCTCCTGTCCTTCAACTTCAGCTGAAGCGATTTGAATATGATTTTATGCGGGACACTATGGTAAAGgtcagcagtctaataaccgttcctgctctattacaaagtgtcctatatcattggtgcatcgcatgaattggcttctttcttattttcatacaaggtgtaa...
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0009g00960.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: LOC_Os01g56490.1 (Oryza sativa), 5'ss of exon 9
GATGCTAGGAAGGGTGTCTTATTCATTGACTTCCCTCCTGTCCTTCAACTTCAGCTGAAGCGATTTGAATATGATTTTATGCGGGACACTATGGTAAAGgtcagcagtctaata---accgttcctgctctattacaaagtgtcctatatcattggtgcatcgcatgaattggcttctttcttat-tttcatacaaggtgtaa
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GATGCCAAGAAAGGGATGCTTTTTATTGACTTCCCTCCAGTCCTGCAAGTTCAATTAAAGCGGTTTGAATATGATTTTGTGCGGGATACCATGGTTAAGgtctgaaattcactctatattttctctggcttgtttctagatttcatctatgatttatccttttcattg--tggcg-cttgctaatatttaacataggctaca-
upper sequence: Vv06s0009g00960.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: LOC_Os12g30540.1 (Oryza sativa), 5'ss of exon 9
GATGCTAGGAAGGGTGTCTTATTCATTGACTTCCCTCCTGTCCTTCAACTTCAGCTGAAGCGATTTGAATATGATTTTATGCGGGACACTATGGTAAAGgtcagcagtctaataaccgttcctgctctattacaaagtgtcctatatcattggtgcatc-gcatg-aattggcttctttcttattttcatacaaggtgtaa
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GATGCAAAGAAGGGAGTACTCTTCCTTGATTTCCCTCCTGTTTTGCAACTTCAACTGAAGCGTTTTGAATATGATTACATGCGAGATACAATGGTCAAGgttggaactgtggcacccttacct-ttaaattctgaagtgtc-tatatttcctttacatctgtctgtaattatattgttgtcttgtttcaagtagattcctc
upper sequence: Vv06s0009g00960.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GRMZM2G071441_T02 (Zea mays), 5'ss of exon 5
GATGCTAGGAAGGGTGTCTTATTCATTGACTTCCCTCCTGTCCTTCAACTTCAGCTGAAGCGATTTGAATATGATTTTATGCGGGACACTATGGTAAAGgtcagcagtctaataaccgttcctgctctattacaaagtgtcct-atatcattggtgcatcgcatgaattggcttctttcttattttcatacaaggtgtaa-----
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GATGCCAAGAAAGGAATGCTTTTTATTGACTTTCCTCCAGTTCTGCAACTTCAGTTAAAACGGTTTGAATATGATTTTGTGCGGGATACGATGCTCAAGgtctgtactc----agccttttatcttttatcttagcatatcaagatttccccttttcatgttttatacttacattgtggtaatt--caatcaaattggagaagtc
upper sequence: Vv06s0009g00960.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GRMZM2G014805_T01 (Zea mays), 5'ss of exon 9
GATGCTAGGAAGGGTGTCTTATTCATTGACTTCCCTCCTGTCCTTCAACTTCAGCTGAAGCGATTTGAATATGATTTTATGCGGGACACTATGGTAAAGgtcagcagtctaataaccgttcctgctctattacaaag----tgtcctatatcat------tggtgcatcgcatgaattggcttctttcttattttcatacaagg-tgtaa
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GATGCAAGGAAAGGTGTGCTTTTCCTTGATTTCCCTCCTGTTTTGCAGCTTCAACTGAAGCGTTTTGAATATGATTACATGCGAGATACAATGGTTAAGgttagaaccgtgctgaataccaccatccaaatgataaaccacttccatacatcttaagaaatggtgaataaggttacccaggattggtgatgatcttatctacttctgcag
upper sequence: Vv06s0009g00960.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA14G04890.1 (Glycine max), 5'ss of exon 9
GATGCTAGGAAGGGTGTCTTATTCATTGACTTCCCTCCTGTCCTTCAACTTCAGCTGAAGCGATTTGAATATGATTTTATGCGGGACACTATGGTAAAGgtcagcagtctaataaccgttcctgctctattacaaagtgtcctatatcattggtgcatcgcatgaattggcttctttcttattttcatacaaggtgtaa-
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GATGCTAAGAAGGGTGTCCTGTTCATTGATTTCCCTCCTGTTCTTCAGCTTCAACTGAAAAGATTTGAATATGACTTTATGCGGGATACTATGGTCAAGgttagcagtccaatagac-tgattgctctatatcatattttcttctccagttactttatttgctgggatatgaagaagttagcattcagtcagactaatat
upper sequence: Vv06s0009g00960.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA02G43930.1 (Glycine max), 5'ss of exon 9
GATGCTAGGAAGGGTGTCTTATTCATTGACTTCCCTCCTGTCCTTCAACTTCAGCTGAAGCGATTTGAATATGATTTTATGCGGGACACTATGGTAAAGgtcagcagtctaataaccgttcctgctctattacaaagtgtcctatatcattggtgcatc-gcatgaat-tggcttctttcttattttcatacaaggtgtaa
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GATGCTAAGAAGGGTGTCCTGTTCATTGATTTCCCTCCTGTTCTTCAGCTTCAACTGAAAAGATTTGAATATGACTTTATGCGGGATACTATGGTCAAGgttggtagtcaaatagac-tcattgctctatattatattttcttctctagttactttatttgctgggatatgatgaagttattattcagacttcagtcaga-
upper sequence: Vv06s0009g00960.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA20G11330.1 (Glycine max), 5'ss of exon 1
-GATGCTAGGAAGGGTGTCTTATTCATTGACTTCCCTCCTGTCCTTCAACTTCAGCTGAAGCGATTTGAATATGATTTTATGCGGGACACTATGGTAAAGgtcagcagtctaataaccg------ttcctgctctattacaaagtgtcctatatcattggtgcatcgcatgaattggcttctttcttattttcatacaaggtgtaa
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GGATGCTAAGAAAGGTGTCCTATTTATTGATTTTCCTCCTGTCCTTCAACTCCAGCTAAAAAGATTTGAATATGACTTTATGCGGGATACTATGGTTAAGgttggctgtccaatggataaatttctttatgccttatcttgatatttgtttgacagttagtacct---atctatttaggttgtagaaattttaccacttgatg---
upper sequence: Vv06s0009g00960.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: EFJ18164 (Selaginella moellendorffii), 5'ss of exon 7
GATGCTAGGAAGGGTGTCTTATTCATTGACTTCCCTCCTGTCCTTCAACTTCAGCTGAAGCGATTTGAATATGATTTTATGCGGGACACTATGGTAAAGgtcagcagtctaataaccgttcctgctctattacaaagtgtcctatatcattggtgcatcgcatgaattggcttctttcttattttcatacaaggtgtaa-
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GATGCACGCAAGGGCGTGCTCTTTGTGGATTTTCCCCCTGTTCTCCAGCTTCAACTCAAGCGGTTTGAATATGATTTTGTGCGAGACACAATGGTTAAGgt-aatagcttgaactacgtt---gtgttggtggatggttcctagttccatt--cactgaatttgggctgtttattgaacagtgcctaattatgctggcagMapped 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|110388155|gb|EC952874.1|EC952874EST: TTCAGCTGAAGCGATTTGAATATGATTTTATGCGGGACACTATGGTAAAG ATAAATGATCGCTATGAGTTCCCTCTGCAACTTGATCTTGATCGAGAGAAT
genomic: TTCAGCTGAAGCGATTTGAATATGATTTTATGCGGGACACTATGGTAAAGgtcagcagtc ... cattgtgtagATAAATGATCGCTATGAGTTCCCTCTGCAACTTGATCTTGATCGAGAGAAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GATGCTAGGAAGGGTGTCTTATTCATTGACTTCCCTCCTGTCCTTCAACTTCAGCTGAAGCGATTTGAATATGATTTTATGCGGGACACTATGGTAAAGgtcagcagtctaataaccgttcctgctctattacaaagtgtcctatatcattggtgcatcgcatgaattggcttctttcttattttcatacaaggtgtaa
- - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC