Sequence
atgc intronic sequence ATGC exonic sequence...tatatactatttactacttgtgccatttgtatccatgtgcagatattaatttgttaatttgcatgtataataacaactctccttttatggtttggtgaagGGGATGATCATAGTATAATGATATATTACCCTAGCTCAGCAGGTGGGGGTATGAAGGAATTGTTTAGGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os03g48300.1 (Oryza sativa), 3'ss of exon 6
tatatactatttactacttgtgccat--ttgtatccatgtgcagatattaatttgttaatttgcatgtataataacaactctccttttatggtttggtgaagGGGATGATCATAGTATAATGATATATTACCCTAGCTCAGCAGGTGGGGGTATGAAGGAATTGTTTAGGAAG
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--tatcattttagcctccctttttatagtagtatggcttgttagtctatgtttcactcacaatgatcaattatacgataactgattccttaatccttttcagGGGATGACCATAGAATAATGATATATTATCCTAATTCTGCTGGTGGTGGAATGAAGGAACTGTTCCGAAAG
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA19G02260.1 (Glycine max), 3'ss of exon 4
---tatatac-tatttactacttgtgccatttgtatccatgtgcagatattaatttgttaatttgcatgtataataacaactctccttttatggtttggtgaagGGGATGATCATAGTATAATGATATATTACCCTAGCTCAGCAGGTGGGGGTATGAAGGAATTGTTTAGGAAG
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ccataattatgcaattatta-ttggactatgcacacacaatcacaattggaaatatatt---tctcaaatgtgataataactgttatttttgtgccttgtgaagCTGATAATCACAGTATAATGATATATTATCCCAGTTCAGCAGGTGGAGGTATGAAGGAATTATTTAGGAAG
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA13G05060.1 (Glycine max), 3'ss of exon 6
---tatatac-tatttactacttgtgccatttgtatccatgtgcagatattaatttgttaatttgcatgtataataacaactctccttttatggtttggtgaagGGGATGATCATAGTATAATGATATATTACCCTAGCTCAGCAGGTGGGGGTATGAAGGAATTGTTTAGGAAG
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ccataattgtgcaattatta-ttggattatacacacacaatcacaattggaaatatatt---tctcaaatgtaataataactgttatttttgtgccttgtgaagCTGATAACCACAGTATAATGATATATTATCCCAGTTCAGCAGGTGGAGGTATGAAGGAATTATTTAGGAAG
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA09G37610.1 (Glycine max), 3'ss of exon 4
tatatactatttactacttgtgccatttgtatccatgtgcagatattaatttgttaatttgcatg-tataataaca-actctccttttatggtttggtgaagGGGATGATCATAGTATAATGATATATTACCCTAGCTCAGCAGGTGGGGGTATGAAGGAATTGTTTAGGAAG
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-tcatgacaacctcttttttttttttttgtttacttg-atatataactaattgaaaatatattttctttgatatggtataacccttattttattttgtgaagGTGATAATCATAGTATAATGATATACTATCCCAGTTCGGCTGGTGGAGGTATGAAGGAATTATTTAGGAAG
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA18G49000.1 (Glycine max), 3'ss of exon 6
------tatatactatttactacttgtgccatttgtatccatgtgcagatattaatttgttaatttgcatgtataataacaactctccttttatggtttggtgaagGGGATGATCATAGTATAATGATATATTACCCTAGCTCAGCAGGTGGGGGTATGAAGGAATTGTTTAGGAAG
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tctcctcacaacctcttttttttttttgtttacttgatatataactaattggaaatatattttcttggatgtggtataac------ctttattttattttgtgaagGTGATAATCACAGTATAATGATATACTATCCCAGTTCAGCTGGTGGAGGTATGAAGGAATTATTTAGGAAG
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT5G15070.1 (Arabidopsis thaliana), 3'ss of exon 7
-------tatatactat-ttactacttgtgccatttgtatccatgtgcagatattaatttgttaatttgcatgtataataacaactctccttttatggtttggtgaagGGGATGATCATAGTATAATGATATATTACCCTAGCTCAGCAGGTGGGGGTATGAAGGAATTGTTTAGGAAG
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ttatttttccttgctatatcagcagtgatcccaattgtttccctg---atttgcagatttttttaattgtctac-taataatgaaatt--ttttatgctt--gtaaagGAGATGACCATAGTATAATGATATACTACCCTAGCTCAGCTGGTGGAGGCATGAAAGAATTGTTTCGTAAG
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT3G01310.2 (Arabidopsis thaliana), 3'ss of exon 7
-------tatatactatt-tactacttgtgccatttgtatccatgtgcagatattaatttgttaatttgcatgtataataacaactctccttttatggtttggtgaagGGGATGATCATAGTATAATGATATATTACCCTAGCTCAGCAGGTGGGGGTATGAAGGAATTGTTTAGGAAG
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gtgagcttgcctctggctatcctccttgttttatttatcttctgatttgcagtttttttttttaaaattattattggctaactattgacattctttatacgtgtttagGAGATGACCATAGTATAATGATATACTACCCTAGCTCGGCAGGTGGAGGCATGAAAGAATTGTTTCGCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaatttgttaatttgcatgtataataacaactctccttttatggtttggtgaagGGGATGATCATAGTATAATGATATATTACCCTAGCTCAGCAGGTGGGGGTATGAAGGAATTGTTTAGGAAG
taataac putative branch site (score: 1)
atgtataataacaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatatactatttactacttgtgccatttgtatccatgtgcagatattaatttgttaatttgcatgtataataacaactctccttttatggtttggtgaagGGGATGATCATAGTATAATGATATATTACCCTAGCTCAGCAGGTGGGGGTATGAAGGAATTGTTTAGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - cttgtgc
- - - - - - - - - - - - - - - - -catgtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aataaca