Sequence
atgc intronic sequence ATGC exonic sequence...tacctacttgtcatggacttcggtgtttcctaaacaacctatgcaacacttttaagcaacacatggaataatgctgtttattgatttgcttttcatttagGTGATATGTGTGGTGGTACGGGAAAATGGAAAGCTCTCAACAGAAAACGGGCTAAAGATGTTTACGAGTTTACTGAATGCCCAAATTGTTATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g01100.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA20G38750.1 (Glycine max), 3'ss of exon 3
tacctacttgtcatggacttcggtgtttcctaaacaaccta-tgcaacacttttaa-gcaacac-atggaataatgctgtttattg--------atttgcttttcatttagGTGATATGTGTGGTGGTACGGGAAAATGGAAAGCTCTCAACAGAAAACGGGCTAAAGATGTTTACGAGTTTACTGAATGCCCAAATTGTTATG
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-------ttgtttcgatatt----attcctgatgccatatgctgtaaccttatcaatgtaagaccagtggatgtttctgtttcttacataccatgtttacttttcatttagATGATATGTGTGGTGGCACAGGAAAATGGAAAGCTCTTAACAGGAAGCGAGCTAAAGATGTTTACGAATTTACTGAGTGTCCAAATTGTTATG
upper sequence: Vv06s0004g01100.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA14G27040.1 (Glycine max), 3'ss of exon 1
tacctacttgtcatggacttcggtgtttcctaaacaaccta-tgcaacacttttaa-gcaacac-atggaataatgctgtttattg--------atttgcttttcatttagGTGATATGTGTGGTGGTACGGGAAAATGGAAAGCTCTCAACAGAAAACGGGCTAAAGATGTTTACGAGTTTACTGAATGCCCAAATTGTTATG
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-------ttgtttcgatatt----attcctgatgccatatgctgtaaccttatcaatgtaagaccagtggatgtttctgtttcttacataccatgtttacttttcatttagATGATATGTGTGGTGGCACAGGAAAATGGAAAGCTCTTAACATGAAGCGAGCTAAAGATGTTTACGAATTTACTGAGTGTCCAAATTGTTATG
upper sequence: Vv06s0004g01100.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G44020.3 (Glycine max), 3'ss of exon 3
tacctacttgtcatggacttcggtgtttcctaaacaa--cctatgcaacacttttaagcaacacatggaataatgctgtttattgatttgcttttcatttagGTGATATGTGTGGTGGTACGGGAAAATGGAAAGCTCTCAACAGAAAACGGGCTAAAGATGTTTACGAGTTTACTGAATGCCCAAATTGTTATG
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tgagttgatgccatatgttttaatcttatcaatatgaggacgagtggatgttactgtttcttacatactttgatacataccat--gtttacttttcatttagGTGATATGTGTGGTGGCACAGGAAAATGGAAAGCTCTTAACCGGAAGCGAGCTAAAGATGTTTATGAATTTACTGAGTGTCCAAATTGTTATG
upper sequence: Vv06s0004g01100.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT2G34860.2 (Arabidopsis thaliana), 3'ss of exon 3
tacctacttgtcatggacttcggtgtttcctaaacaacctatgcaacacttt-taagc--aacacatggaataatgctgttta--ttgatttgcttttcatttagGTGATATGTGTGGTGGTACGGGAAAATGGAAAGCTCTCAACAGAAAACGGGCTAAAGATGTTTACGAGTTTACTGAATGCCCAAATTGTTATG
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-----gttcgtaatgattctctgtttccatttgatatgatgcaaaatgcctcatgagcttactactgatacccatttggtttaattggattttgttatgatatagGTGATATGTGTGGTGGTACAGGAAAATGGAAAGCTCTCAACCGAAAACGTGCGAAAGATGTATATGAGTTTACGGAATGTCCAAACTGTTACG
upper sequence: Vv06s0004g01100.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: EFJ07587 (Selaginella moellendorffii), 3'ss of exon 1
tacctacttgtcatggacttcggtgtttcctaaacaacctatgcaacacttttaagcaacacatggaataatgctgttt-attgatttgcttttcatttagGTGATATGTGTGGTGGTACGGGAAAATGGAAAGCTCTCAACAGAAAACGGGCTAAAGATGTTTACGAGTTTACTGAATGCCCAAATTGTTATG
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--------------gtaagttgatagt-cctgccctgctagtgt----tgttccagccacgcattcttctttgtgactggattggattcgcggtgccacagGTGATATGTGTGGAGGGACTGGAAAGTGGAAAGCTCTCAGCAGGAAGCGAGCCAAGGACGTGTACGAGTTCACCGAGTGTCCCAATTGCTACG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acacttttaagcaacacatggaataatgctgtttattgatttgcttttcatttagGTGATATGTGTGGTGGTACGGGAAAATGGAAAGCTCTCAACAGAAAACGGGCTAAAGATGTTTACGAGTTTACTGAATGCCCAAATTGTTATG
tattgat putative branch site (score: 3)
tttgcttttcattt CT-rich tract
tttattgattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tacctacttgtcatggacttcggtgtttcctaaacaacctatgcaacacttttaagcaacacatggaataatgctgtttattgatttgcttttcatttagGTGATATGTGTGGTGGTACGGGAAAATGGAAAGCTCTCAACAGAAAACGGGCTAAAGATGTTTACGAGTTTACTGAATGCCCAAATTGTTATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- cctactt
- - - - - -catggac
- - - - - - - - - - - -tgtttcc
- - - - - - - - - - - - - - - - aacaacc
- - - - - - - - - - - - - - - - - - - -tatgcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - caacaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgctgtt