Sequence
atgc intronic sequence ATGC exonic sequencegtatgctggtcagttgcctccttttgtctgttccaaaattttgtaaccaaaatggccagcaatcatgttacaaaagcttagaagttacatatacctgggaataccattgccatgcccatgactcttcatttcttcctttgtttatctttgtccaattttgagaaattaaatgttatactgatacgtcatatgtttgtagGGAGATGGTTCATGGCATGGGGGCTGCTTAGCTTTGGCTGAACTGGCACGTAGGGGATTGCTCTTACCAATCAGCTTTCCCAAAGTTGTACCGGTTGTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0048g00470.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os10g36490.1 (Oryza sativa), 3'ss of exon 6
gtatgctggtcagttgcctccttttgtctgttccaaaattttgtaaccaaaatggccagcaatcatgttacaaaagcttagaagttacatatacctgggaataccattgccatgcccatgactcttcatttcttcctttgtttatctttgtccaattttgag-aaattaaatgt-tatac-tgatacgtcatatgtt-tgtagGGAGATGGTTCATGGCATGGGGGCTGCTTAGCTTTGGCTGAACTGGCACGTAGGGGATTGCTCTTACCAATCAGCTTTCCCAAAGTTGTACCGGTTGTTG
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--------------------------------------------------------------gtttgttgaagaactcatgtagtttaagacatcatttga--ctttttaaatattcctcagtttccatctctaccttt---caaaagtg-caagtcctgagtgaaccacaagtatataccttatgacttttgggttctgaagGGTGATGGTTCCTGGCATGGAGGCTGCTTGGCTTTGGCTGAACTTGCTCGTAGGGGACTGTTGCTGCCTTCTAGCTTTCCTGATGTTATTCCTGTTATAA
upper sequence: Vv15s0048g00470.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA10G42560.1 (Glycine max), 3'ss of exon 6
gtatgctggtcagttgcctccttttgtctgttccaaaattttgtaaccaaaatggccagcaatcatgttacaaaagcttagaagttacatatacctgggaataccattgccatgcccatgactcttcatttcttcctttgtttatctttgtccaattttgagaaattaaatgttata-ctgatacgtcata-tgtttgtagGGAGATGGTTCATGGCATGGGGGCTGCTTAGCTTTGGCTGAACTGGCACGTAGGGGATTGCTCTTACCAATCAGCTTTCCCAAAGTTGTACCGGTTGTTG
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gtgtgatgctaaacttttgtttgcttaaagttcctgagcactgtaactta-----ctagt--ttaatttacactcacctggg---tttatatact-----atatagttaatgtgtgagaggtttactatgttaac---tatttat--ttgtctggttct---------actgttatagctcacatgtaacactttttacagGGTGATGGTTCATGGCATGGAGGCTGCTTAGCTTTGGCTGAACTTGCTCGTAGGGGCTTGCTCTTACCTGCTAGTCTTCCCAAAGTTGTTCCTTTTATCG
upper sequence: Vv15s0048g00470.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA20G24470.1 (Glycine max), 3'ss of exon 7
gtatgctggtcagttgcctccttttgtctg-ttccaaaattttgtaaccaaaatggccagcaatcatgttacaaaagcttagaagttacatatacctgggaataccattgccatgcccatgactcttcatttcttcctttgtttatctttgtccaattttgagaaattaaatgttata-ctgatacgtcatatgtttgtagGGAGATGGTTCATGGCATGGGGGCTGCTTAGCTTTGGCTGAACTGGCACGTAGGGGATTGCTCTTACCAATCAGCTTTCCCAAAGTTGTACCGGTTGTTG
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-------------------------gtgtgatactaaacttttgtttgcttaaagttcctgagcactgtaatttacttttttaatttacactcacctaggtttatatactatatgtagttactgtgtgagatgtttactatgttagctattt---atttgtctggttccactgttatagctcaaatgtaacactttttcagGGTGATGGTTCATGGCATGGAGGCTGCTTAGCTTTGGCTGAACTTGCTCGTAGAGGCTTGCTCTTACCTGCTAGTCTTCCCAAAGTTGTTCCTGTGATTG
upper sequence: Vv15s0048g00470.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT3G60740.1 (Arabidopsis thaliana), 3'ss of exon 6
gtatgctggtcagttgcctccttttgtctgttccaaaattttgtaaccaaaatggccagcaatcatgttacaaaagcttagaagttacatatac-ctgggaataccattgccatgcccatgactcttcatttcttcctttgtttatctttgtccaattttgagaaattaaatgttatactgatacgtcatatgtttgtagGGAGATGGTTCATGGCATGGGGGCTGCTTAGCTTTGGCTGAACTGGCACGTAGGGGATTGCTCTTACCAATCAGCTTTCCCAAAGTTGTACCGGTTGTTG
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----------------------------------------------------------------------------------------gtactcgttgtggatatggcagcatggcttgcgtgtacttaaatcc------aattaaaagcatgcattatctag---ctgacagttattgtggttt-tcatg-gcattcagGGAGATGGTTCATGGCATGGGGGTTGTTTGGCCTTAGCTGAACTGGCTCGTAGAGGGTTACTTTTGCCTAGAAGTTTTCCACTAGTCGTCCCAGTTATTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctttgtccaattttgagaaattaaatgttatactgatacgtcatatgtttgtagGGAGATGGTTCATGGCATGGGGGCTGCTTAGCTTTGGCTGAACTGGCACGTAGGGGATTGCTCTTACCAATCAGCTTTCCCAAAGTTGTACCGGTTGTTG
tactgat putative branch site (score: 2)
aattttgagaaattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgctggtcagttgcctccttttgtctgttccaaaattttgtaaccaaaatggccagcaatcatgttacaaaagcttagaagttacatatacctgggaataccattgccatgcccatgactcttcatttcttcctttgtttatctttgtccaattttgagaaattaaatgttatactgatacgtcatatgtttgtagGGAGATGGTTCATGGCATGGGGGCTGCTTAGCTTTGGCTGAACTGGCACGTAGGGGATTGCTCTTACCAATCAGCTTTCCCAAAGTTGTACCGGTTGTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT