Sequence
atgc intronic sequence ATGC exonic sequence...tgtttgtgttttttttccttgagatttctttgcacaattagaagctagattaagcatgaaacacttaaccatgtgtacactgttttttgtttgttttcagTGGTCGGATACGCTTCAGAAGCTTGATTTCCAAGAGCTGGTAATGTTCCTTCAACACCTTCCAACTCATAACTGGACTCACCAAGAGCTCGAGATGGTGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0094g00070.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os09g34040.1 (Oryza sativa), 3'ss of exon 9
------------------------------------------------------------tgtt-tgtgttttttttccttgagatttctttgcacaattagaagctagattaagcatgaaacacttaaccatgtgtacact-gttttttgtttgttt-----tcagTGGTCGGATACGCTTCAGAAGCTTGATTTCCAAGAGCTGGTAATGTTCCTTCAACACCTTCCAACTCATAACTGGACTCACCAAGAGCTCGAGATGGTGC
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gtaagttgaagtaccccttgactgttcataattatttttttcaacttcagtgtatgcaagtgttgcatgcctggtgcaggcaaatgcagttttcacaat--gtttctggtgtaaatactaatgtccaagtccattgtaattaagttctctctttatttctacctcagTGGTCAGACAAGCTGAAGAAACTTGATTTTCAAGAGATGGTCATGTTCCTTCAGCACCTTCCGACGAGGAACTGGGCTCACCATGAGCTTGAGATGGTGC
upper sequence: Vv05s0094g00070.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA13G42180.1 (Glycine max), 3'ss of exon 9
tgtttgtgttttttttccttg-agatttctttgcacaattagaagctagattaagcatgaaac---acttaaccatgtgtacactgttttttgtttgttttcagTGGTCGGATACGCTTCAGAAGCTTGATTTCCAAGAGCTGGTAATGTTCCTTCAACACCTTCCAACTCATAACTGGACTCACCAAGAGCTCGAGATGGTGC
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----tgcaatttttttgccagtaaacacttctgcaccactttgtgaatgcttctatttccacctaggatgaatattctctaatctttataattgtttttatcagTGGTCTGACAATCTCCAGAAGCTTGATTTCCAAGAGTTGGTAATGTTCCTTCAACACCTTCCAACTAAGAACTGGACTGACCAGGAGCTCGAGATGGTAC
upper sequence: Vv05s0094g00070.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA15G03200.1 (Glycine max), 3'ss of exon 9
tgtttgtgttttttttccttg-agatttctttgcacaattagaagctagattaagcatgaaacacttaaccatgtgtacactgttttttgt--ttgttt---tcagTGGTCGGATACGCTTCAGAAGCTTGATTTCCAAGAGCTGGTAATGTTCCTTCAACACCTTCCAACTCATAACTGGACTCACCAAGAGCTCGAGATGGTGC
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----tgcaacttttttgccagtacacacttctgcaccacttt--gtcaatgcttctatttccccctaggatgaatattctctaatctttacaattgtttttatcagTGGTCTGACAAGCTCCAGAAGCTTGATTTCCAAGAGATGGTAATGTTCCTTCAGCACCTTCCAACTAAGAACTGGACTCAACAGGAGCTCGAGATGGTAC
upper sequence: Vv05s0094g00070.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA12G05350.1 (Glycine max), 3'ss of exon 10
---tgtttgtgttttttttccttgagatttctttgcacaattagaagctagattaagcatgaaacacttaaccatgtgtacactgttttttgtttgttttcagTGGTCGGATACGCTTCAGAAGCTTGATTTCCAAGAGCTGGTAATGTTCCTTCAACACCTTCCAACTCATAACTGGACTCACCAAGAGCTCGAGATGGTGC
||| ||| | || | | | || ||| ||| | | | | | | | | | | || | || ||| | || || ||||||| || | || ||||| |||||||||||||| |||||||||| ||||||||||||||||| | |||||||||||||| ||||| ||||||||||
ctgaatttatgtatagttgcttaca---ttatttagacattcttgcttttggcaatgattaatttagtagaaactgaattttctttttacttgttccctttagTGGTCAGACAAACTCCAGAAACTTGATTTCCAAGAATTGGTAATGTTTCTTCAACACCTTCCAACAGAGAACTGGACTCACCAGGAGCTTGAGATGGTGC
upper sequence: Vv05s0094g00070.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA11G13330.1 (Glycine max), 3'ss of exon 9
tgtttgtgttttttttccttgagatttctttgcacaat-tagaagct--agattaagcatgaaacacttaaccatgtgtacactgttttttgtttgttttcagTGGTCGGATACGCTTCAGAAGCTTGATTTCCAAGAGCTGGTAATGTTCCTTCAACACCTTCCAACTCATAACTGGACTCACCAAGAGCTCGAGATGGTGC
||| ||| | || | | | || ||| ||| | | | ||| | | || | | | | || | || ||| | ||| || ||||||| || | ||| ||||| ||| |||||||||| |||||||||||||||||||||||||||| | ||||||||||||| ||||| ||||||||||
aatttatgtatagttgcttagg---ttatttacacggtcttgttgcttttggcaatgcttaatttagtaggaactgaattttctttttactttttccctttagTGGTCAGACAAGCTCCAGAAACTTCATTTCCAAGAATTGGTAATGTTCCTTCAACACCTTCCAACAGAGAACTGGACTCACCGGGAGCTTGAGATGGTGC
upper sequence: Vv05s0094g00070.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT2G30710.1 (Arabidopsis thaliana), 3'ss of exon 9
tgtttgtgttttttttccttgagatttctt-tgcacaattagaagctagattaagc-atgaaacactt-aaccatgtgtacactgttttttgtttgttttcagTGGTCGGATACGCTTCAGAAGCTTGATTTCCAAGAGCTGGTAATGTTCCTTCAACACCTTCCAACTCATAACTGGACTCACCAAGAGCTCGAGATGGTGC
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-gtaagcaaacactgaatcgaatataacttgcgttggtcttgaaaatgttttcttctataaaccacgagaatcaaatacaagttgtttctgtaaacaatgcagTGGTCTGATGAGCTGAAGAAGCTAGATTTTCAAGAAATGGTAATGTTCCTGCAACACCTTCCGACACATAACTGGTCAGACCAAGAGCTCGAAATGGTTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagattaagcatgaaacacttaaccatgtgtacactgttttttgtttgttttcagTGGTCGGATACGCTTCAGAAGCTTGATTTCCAAGAGCTGGTAATGTTCCTTCAACACCTTCCAACTCATAACTGGACTCACCAAGAGCTCGAGATGGTGC
acttaac putative branch site (score: 3)
ttttttgtttgttttc putative PPT
ttttttgtttgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtttgtgttttttttccttgagatttctttgcacaattagaagctagattaagcatgaaacacttaaccatgtgtacactgttttttgtttgttttcagTGGTCGGATACGCTTCAGAAGCTTGATTTCCAAGAGCTGGTAATGTTCCTTCAACACCTTCCAACTCATAACTGGACTCACCAAGAGCTCGAGATGGTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - ttccttg
- - - - - - - - - - - - - -ctttgca
- - - - - - - - - - - - - - - - - - - - - - - - -ttaagca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaacac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgtgt