Sequence
atgc intronic sequence ATGC exonic sequenceTGGTTGCTCTATCCTTAGCTGCTCCTTCTCTGATGATAGTAATGTATATTATTGCGTTGGGACCGCATATGTTTTACCAGAGGAAAATGAGCCAACCAAGgtaaaatgccatattagtacatacatacatacctgtatatatgtattggtttgttgccagaatagcacttgcagtctaaattaatgtctgaatcgctgag...
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: LOC_Os05g51480.1 (Oryza sativa), 5'ss of exon 17
TGGTTGCTCTATCCTTAGCTGCTCCTTCTCTGATGATAGTAATGTATATTATTGCGTTGGGACCGCATATGTTTTACCAGAGGAAAATGAGCCAACCAAGgtaaaatgccatattagtacatacatacatacctgt-----atatatgtattggtttgttgccagaatagcacttgcagtctaaattaatgtctgaatcgctgag
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TGGCTGCTCCATCATTAGCTGCTCATTCTCAGATGATAATAATGTTTATTATTGTGTGGGAACAGCATATGTTTTACCAGAGGAAAATGAACCATCAAAGgtaatatgtttggtagcttgatgttttcttacaggtgttcgatctcattaatagtattttcaaataaaaaaagttgtatttttgtttgaaaaataggaag-----
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: GLYMA05G30530.1 (Glycine max), 5'ss of exon 17
TGGTTGCTCTATCCTTAGCTGCTCCTTCTCTGATGATAGTAATGTATATTATTGCGTTGGGACCGCATATGTTTTACCAGAGGAAAATGAGCCAACCAAGgtaaaatgccatattagtacatacatacatacctgtatatatgtattggtttgttgccagaatagcacttgcagtctaaattaatgtctgaatcgctgag
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TGGTTGCTTCATAATTAGCTGCTCCTTCTCAGATGACAATAATGTGTATTACTGTGTTGGAACTGCATATGTACTGCCAGAGGAAAATGAACCAACCAAAgtaag-tgagaaatttgtatttttcagcattattctagtcaagcttc----tgatatcctgcttcctatggccattttaaaacatgtag-----------
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: GLYMA08G13680.1 (Glycine max), 5'ss of exon 17
TGGTTGCTCTATCCTTAGCTGCTCCTTCTCTGATGATAGTAATGTATATTATTGCGTTGGGACCGCATATGTTTTACCAGAGGAAAATGAGCCAACCAAGgtaaaatgccatattagtacatacatacatacctgtatatatgtattggtttgttgccagaatagcacttgcagtctaaattaatgtctgaatcgctgag
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TGGTTGCTTCATAATTAGCTGCTCCTTCTCAGATGACAATAATGTGTATTACTGTGTTGGAACTGCATATGTACTGCCAGAGGAAAATGAACCAACCAAAgtaagttgagaaatttgtatttt--ttcagcattgttctagtcaaagcttctgatatcctgcttcctttggccattttaaaacatgtag-----------
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: GLYMA12G08330.1 (Glycine max), 5'ss of exon 5
TGGTTGCTCTATCCTTAGCTGCTCCTTCTCTGATGATAGTAATGTATATTATTGCGTTGGGACCGCATATGTTTTACCAGAGGAAAATGAGCCAACCAAGgtaaaatgccatattagtacatacatacatacctgtatatatgtattggtttgttgccagaatagcacttgcagtctaaattaatgtctgaatcgctgag
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--------------------------------ATGACAATAATGTGTATTACTGTGTTGGAACTGCATATGTACTGCCAGAGGAAAATGAACCAACCAAAgtaagttgagaaatttgtatttt--ttcagcattgttctagtcaaagcttctgatatcctgcttcctttggcctttttaaaacatgtag-----------
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: AT4G05420.2 (Arabidopsis thaliana), 5'ss of exon 16
TGGTTGCTCTATCCTTAGCTGCTCCTTCTCTGATGATAGTAATGTATATTATTGCGTTGGGACCGCATATGTTTTACCAGAGGAAAATGAGCCAACCAAGgtaaa-atgccatattagtacatacatacatac-ctgtatatatgtattggtttg--ttgccagaatagcacttgcagtctaaattaatgtctgaatcgctgag
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TGGTTGTTCAATTCTGAGCTGCTCATTCACCGAAGATAAAAATGTCTATTACTGCGTTGGAACCGCATATGTTTTACCGGAGGAAAATGAACCAACTAAGgtatctgttttctctgagaacatatcaacactctcagttcaaatattcttttctaatttgtctttgaaatacttat--ttttattttgtgatttag--------
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: AT4G21100.1 (Arabidopsis thaliana), 5'ss of exon 17
TGGTTGCTCTATCCTTAGCTGCTCCTTCTCTGATGATAGTAATGTATATTATTGCGTTGGGACCGCATATGTTTTACCAGAGGAAAATGAGCCAACCAAGgtaaaatgccatattagtacatacatacatacctgtatatatgtattggtttgttgccagaatagcacttgcagtctaaattaatgtctgaatcgctgag
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TGGTTGCTCCATATTGAGCTGCTCGTTTACAGACGACAAAAATGTCTATTATTGTGTTGGTACAGCATATGTTTTGCCCGAGGAAAATGAACCAACTAAGgta-----tcatttcagtg---agactcactactgtttat-----tttgtttgtgtgaaaatttatcttttcatttttatattgtttcgtggatgtag--Mapped 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|161718555|gb|FC065380.1|FC065380EST: ATTGCGTTGGGACCGCATATGTTTTACCAGAGGAAAATGAGCCAACCAAG GGCCGAATACTGGTCTTCATAGTTGAGGATGGGA-GCTACAGT-AATTGCT
genomic: ATTGCGTTGGGACCGCATATGTTTTACCAGAGGAAAATGAGCCAACCAAGgtaaaatgcc ... acaactgtagGGCCGAATACTGGTCTTCATAGTTGAGGATGGGAAGCTACAGTTAATTGCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGGTTGCTCTATCCTTAGCTGCTCCTTCTCTGATGATAGTAATGTATATTATTGCGTTGGGACCGCATATGTTTTACCAGAGGAAAATGAGCCAACCAAGgtaaaatgccatattagtacatacatacatacctgtatatatgtattggtttgttgccagaatagcacttgcagtctaaattaatgtctgaatcgctgag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaattaa