Sequence
atgc intronic sequence ATGC exonic sequence...tcaagtcttgggtttctttgcttttttctcttttcccttatcgtatttacttgtgcctttttgaaatgttaaacaagctaatttattgggcttgtggcagTTCAGTTTTGGAAGAGGAGGATGAGCGGGGAGTTGCTCACATAGTTGAGCATCTTGCTTTCAGTGCCACTAAGAAATATACAAATCATGATATTGTCAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g02640.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G03470.1 (Glycine max), 3'ss of exon 1
tcaagtcttgggtttctttgcttttttctcttttcccttatcgtattt--acttgtgcctttttgaa----atgttaaac--aagctaatttattgggcttgtggcagTTCAGTTTTGGAAGAGGAGGATGAGCGGGGAGTTGCTCACATAGTTGAGCATCTTGCTTTCAGTGCCACTAAGAAATATACAAATCATGATATTGTCAAA
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-gtaataatcaataacccaacctaacctaattctccattcctatattctgaactctgaatcattaaattcaatgctgaatcgatgcttgtgaattcgg-tcacggcagATCAGTTCTCGAAGAAGAGGATGAACGCGGAGTTGCTCACATTGTTGAGCACCTCGCTTTCAGTGCCACCAAGAAATACACCAATCACGACATCATCAAG
upper sequence: Vv11s0016g02640.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA05G36170.1 (Glycine max), 3'ss of exon 1
------tcaagtcttgggtttctttgcttttttctcttttcccttatcgtatttacttgtgcctttt-tgaaatgttaaacaagctaatt--tattgggcttgtggcagTTCAGTTTTGGAAGAGGAGGATGAGCGGGGAGTTGCTCACATAGTTGAGCATCTTGCTTTCAGTGCCACTAAGAAATATACAAATCATGATATTGTCAAA
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gtaacccttagcctaacctaacctaacctaattctccatttctatattataaattattattcattcaattcaatgctgaatc-gctgattgtgaattcggtcacggcagGTCAGTTCTCGAAGAAGAGGATGAACGCGGAGTTGCTCACATTGTTGAGCACCTCGCTTTCAGTGCCACCAAGAAATACACCAATCACGACATCATCAAG
upper sequence: Vv11s0016g02640.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G56730.1 (Arabidopsis thaliana), 3'ss of exon 1
tcaagtctt--gggtttctttgcttttttctct--tttcccttatcgtatttacttgtgcctttttgaaatgttaaacaagctaatttattgggcttgtggcagTTCAGTTTTGGAAGAGGAGGATGAGCGGGGAGTTGCTCACATAGTTGAGCATCTTGCTTTCAGTGCCACTAAGAAATATACAAATCATGATATTGTCAAA
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ttatcttttatgaatagatttgtgacatgcattgatatattcgataatacagaattgtgcgctat--aaatgatg--ctgacacaccttttggtttattggcagTTCAGTTTTGGAAGAGGAGGATCAGCGTGGAGTTGCTCATATAGTAGAGCATCTTGCATTTAGTGCTACAACGAGATATACAAATCATGATATTGTCAAG
upper sequence: Vv11s0016g02640.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: EFJ13537 (Selaginella moellendorffii), 3'ss of exon 1
tcaagtcttgggtttctttgcttttttctcttttcccttatcgtatttacttgtgcctttttgaaatgttaaacaagctaatttattgggcttgtggcagTTCAGTTTTGGAAGAGGAGGATGAGCGGGGAGTTGCTCACATAGTTGAGCATCTTGCTTTCAGTGCCACTAAGAAATATACAAATCATGATATTGTCAAA
| | || | |||||| | | | | | | || ||||| ||| ||| ||| | | || || || || ||||||||||||| ||||| ||||| |||||||| | ||||| | |||||||||||||| | ||| ||||| || || || ||||| |||
-------------------gtatggagctttcttccct-gcattctctgcgtttttctccgggaaatctta--tttgcttctttgcttgtct------agGTCGGTAATGGAAGAGGAGGAGGAGCGTGGAGTGGCTCACATTCTCGAGCACTTGGCTTTCAGTGCCACGACGAAGTATACGAACCACGACATTGTGAAA
upper sequence: Vv11s0016g02640.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: EFJ11751 (Selaginella moellendorffii), 3'ss of exon 1
tcaagtcttgggtttctttgcttttttctcttttcccttatcgtatttacttgtgcctttttgaaatgttaaacaagctaatttattgggcttgtggcagTTCAGTTTTGGAAGAGGAGGATGAGCGGGGAGTTGCTCACATAGTTGAGCATCTTGCTTTCAGTGCCACTAAGAAATATACAAATCATGATATTGTCAAA
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-------------------gtatggagctttcttccct----gcattctct-gcgtttctccgggaaatcttatttgcttctttgcttgtct------agGTCGGTAATGGAAGAGGAGGAGGAGCGTGGAGTGGCTCACATTCTCGAGCACTTGGCTTTCAGTGCCACGACGAAGTATACGAACCACGACATTGTGAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttacttgtgcctttttgaaatgttaaacaagctaatttattgggcttgtggcagTTCAGTTTTGGAAGAGGAGGATGAGCGGGGAGTTGCTCACATAGTTGAGCATCTTGCTTTCAGTGCCACTAAGAAATATACAAATCATGATATTGTCAAA
agctaat putative branch site (score: 3)
tttttgaaatgttaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcaagtcttgggtttctttgcttttttctcttttcccttatcgtatttacttgtgcctttttgaaatgttaaacaagctaatttattgggcttgtggcagTTCAGTTTTGGAAGAGGAGGATGAGCGGGGAGTTGCTCACATAGTTGAGCATCTTGCTTTCAGTGCCACTAAGAAATATACAAATCATGATATTGTCAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
tcaagtc
- - - - - - - - - - - - - - - - -tccctta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -taaacaa