Sequence
atgc intronic sequence ATGC exonic sequence...tacataacttaaagtttctggtttcaagttgatgaattttccctctttagtggtgttcttcttatctctttctaatctgtgtgatgcaactgttttacagGGTACATCATATGAAAATATGACTATTATTGTTCAGAATTATGTGCAGAGCTTGATGTCCAAGTACCCTTATTGGAATAGGACCCTGGGCGCTGATCACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g00680.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os06g43160.1 (Oryza sativa), 3'ss of exon 1
tacataacttaaagtttctggtttcaagttgatgaattttccctctttagtggtgttcttcttatctctttctaatctgtgtgatgcaactgttttacagGGTACATCATATGAAAATATGACTATTATTGTTCAGAATTATGTGCAGAGCTTGATGTCCAAGTACCCTTATTGGAATAGGACCCTGGGCGCTGATCACT--------------------------------------------------------------------------------
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-------------------------------------------------------------------------------cgccat-ctttagctttgcagggtacttcttatgagaatatgacaataatagttcagaattatgttgagagcttgataaacaagtacccttactggaacagGACACTGGGGGGTGGGGGCTGACCATTTTTTCGTTACATGCCATGATGTTGGTGTTAGAGCATTCGAAGGGCTTCCCTTTATCATTAAGAACTCTATCAG
upper sequence: Vv03s0038g00680.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA09G33330.1 (Glycine max), 3'ss of exon 2
tacataacttaaagtttctggtttcaagttgatgaattttccctctttagtggtgttcttcttatctctttctaatctg-tgtgatgc--aactgttttacagGGTACATCATATGAAAATATGACTATTATTGTTCAGAATTATGTGCAGAGCTTGATGTCCAAGTACCCTTATTGGAATAGGACCCTGGGCGCTGATCACT
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-tgatgaataaaaagaaaagattgacaac-gttcaatttggattggatggttaagtgactgc-atctaggtggaatgtggtctcatgtttgtgtgttatgcagGGCACGAGTTATGAGAATATGACAATAATTGTGCAAAATTATGTGGAGAGCTTGATATCCAAATATCCTTATTGGAATAGAACCTTGGGTGCTGATCACT
upper sequence: Vv03s0038g00680.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA01G02630.1 (Glycine max), 3'ss of exon 2
tacataacttaaagtttctggtttcaagttgatgaatt---ttccctctttagtggtgttcttcttatctctttctaatctgtgtgatgcaactgttttacagGGTACATCATATGAAAATATGACTATTATTGTTCAGAATTATGTGCAGAGCTTGATGTCCAAGTACCCTTATTGGAATAGGACCCTGGGCGCTGATCACT
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-ttattaatgaaaatgatagatagacaatctttagcttggattagatggttaagtgattgcttctgggtggaatgtggtctcatgtttgcg--tgttatgcagGGCACGAGTTATGAGAATATGACGATAATTGTACAAAACTATGTGGAGAGCTTGATATCCAAATATCCTTATTGGAACAGAACCTTGGGTGCTGATCACT
upper sequence: Vv03s0038g00680.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT4G38040.1 (Arabidopsis thaliana), 3'ss of exon 1
tacataacttaaagtttctggtttcaagttgatgaattttccctctttagtggtgttcttcttatctctttctaatctgtgtgatgcaactgttttacagGGTACATCATATGAAAATATGACTATTATTGTTCAGAATTATGTGCAGAGCTTGATGTCCAAGTACCCTTATTGGAATAGGACCCTGGGCGCTGATCACT
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------gtaagaatttacaagttttgattcactgagaatttgcaatttcatgaa--tttgatgattgaattgtgat------gatct--ttgttgtgcagGGAACATCATATGAAAATATGACTGTGATTGTTCAAAACTATGTTGATGGATTGATAGCTAAGTATCCTTATTGGAATAGAACTTTAGGAGCAGATCACT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttagtggtgttcttcttatctctttctaatctgtgtgatgcaactgttttacagGGTACATCATATGAAAATATGACTATTATTGTTCAGAATTATGTGCAGAGCTTGATGTCCAAGTACCCTTATTGGAATAGGACCCTGGGCGCTGATCACT
ttctaat putative branch site (score: 2)
ctgtttt putative PPT
tttctaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tacataacttaaagtttctggtttcaagttgatgaattttccctctttagtggtgttcttcttatctctttctaatctgtgtgatgcaactgttttacagGGTACATCATATGAAAATATGACTATTATTGTTCAGAATTATGTGCAGAGCTTGATGTCCAAGTACCCTTATTGGAATAGGACCCTGGGCGCTGATCACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
-acataac
- - - - - - - tttctgg
- - - - - - - - - - - - - - - - - - - - ccctctt
- - - - - - - - - - - - - - - - - - - - - - - - agtggtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atgcaac