Sequence
atgc intronic sequence ATGC exonic sequencegtgactcaaatcatatgtaacatcatttttcatgcccaggtctcccatatttgatcttgtttttgctgatatgtattggtgggttgaattgcagGTACAACACCTAATAGAGAATTGTTTGATCTTCCACATGAGTAAAGAAGAGTGCATGGAAGCCCTCTCCAAACATGCAAACATCGAACCCGTCATCACCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0317g00030.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA10G43720.1 (Glycine max), 3'ss of exon 1
gtgactcaaatcatatgtaacatcatttttcatgcccaggtctcccatatttgatcttgtttttgctgatatgtattg-gtgggttga--attgcagGTACAACACCTAATAGAGAATTGTTTGATCTTCCACATGAGTAAAGAAGAGTGCATGGAAGCCCTCTCCAAACATGCAAACATCGAACCCGTCATCACCT
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-----gtatat-atatatagctttaaattctttgttattgttataaagatc--atcgtgttgtt-ttgacaagttttctacgaattaattaatatagGTGCAGCATCTGATCGAGAAGTGTTTGATCTTTCACATGACCAAGGAAGAATGCATGGAAGCGCTCTCTAAACATGCAAATATTAATCCTATTATAACAT
upper sequence: Vv00s0317g00030.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA20G38420.1 (Glycine max), 3'ss of exon 1
gtgactcaaatcata-tgtaacatcatttttcatgcccaggtctcccatatttgatcttgtttttgctgatatg-tattggtgggttgaattgcagGTACAACACCTAATAGAGAATTGTTTGATCTTCCACATGAGTAAAGAAGAGTGCATGGAAGCCCTCTCCAAACATGCAAACATCGAACCCGTCATCACCT
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----gtaatattatagctttaaattatttcttattataagaccatc--------gttttgttttgacaagttttctacgaattaattga--tatagGTGCAGCATCTGATCGAGAAGTGTTTGATCTTTCACATGACCAAGGAAGAATGCATGGAAGCTCTCTCTAAACATGCAAATATTAATCCTATTATAACAT
upper sequence: Vv00s0317g00030.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA18G52240.1 (Glycine max), 3'ss of exon 1
------------------gtgactcaaatcatatgtaacatcatttttcatgcccag-gtctcccatatttgatcttgttt--ttgctgatatgtattggtgggttgaattgcagGTACAACACCTAATAGAGAATTGTTTGATCTTCCACATGAGTAAAGAAGAGTGCATGGAAGCCCTCTCCAAACATGCAAACATCGAACCCGTCATCACCT
||| | || || | ||| |||| || | || ||||| | ||| | | | || || | || ||| | |||| |||| || ||||| || ||||| ||||||| ||| |||||| || ||||||||||||||||| |||||||| |||||||| || | || ||||| || |
gtaagagagcagctagcttcaacttcagctttaattatcttcaatttttattttttgtgttgatcatatgtaccctttcatgatcgttgtgatatgtt--tggatacaatt--agGTGCACCACCTGATTGAGAAGTGTTTGACCTTTCACATGTCAAAGGAAGAGTGCATGGAAGCTCTCTCCAAGCATGCAAATATTAAGCCTGTCATAACAT
upper sequence: Vv00s0317g00030.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA02G10620.1 (Glycine max), 3'ss of exon 1
---------------gtgactcaaatcatatgtaacatcatttttcatgcccaggtctcccatatttgatcttgtttttgctgatatgtattggtgggttgaattgcagGTACAACACCTAATAGAGAATTGTTTGATCTTCCACATGAGTAAAGAAGAGTGCATGGAAGCCCTCTCCAAACATGCAAACATCGAACCCGTCATCACCT
||| ||| | | | ||||| | | | ||||| | | | | | | | || || | || | || | |||| || ||| | || ||||| ||||||||||| |||||| || ||||| ||||||||||| |||||||| |||||||| || | || ||||| || |
gtaagagggctagctacaacttctgctctatctttcttttttttttttttt--gtttgatcatatatacccctttcatgatcgttgtgacatgcttggataaaat-tagGTGCAGCACATGATTGAGAAGTGTTTGATCTTTCACATGTCAAAGGAAGAATGCATGGAAGCTCTCTCCAAGCATGCAAATATTAAGCCTGTCATAACAT
upper sequence: Vv00s0317g00030.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G55240.1 (Arabidopsis thaliana), 3'ss of exon 1
-----------gtgactcaaa----tcatatgtaacatcatttttcatgccca-----ggtctcccatatttgatctt---gtttttgct--gatatgtattggtgggt---tgaat-tgcagGTACAACACCTAATAGAGAATTGTTTGATCTTCCACATGAGTAAAGAAGAGTGCATGGAAGCCCTCTCCAAACATGCAAACATCGAACCCGTCATCACCT
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gtaatattatattgattcaagaacctcatgtacttctccggccgtcgattctatgaatgatcttatctatttatcttttacgtatgtacctcaatatctttggatgtgtgtatgtatgtatagGTGCAGCACATGATAGAGAAATGTTTGATCTTCCATATGAGCAAAGAAGAGTGTGTGGAAGCTCTCTCTAAGCATGCAAACATCACTCCTGTCATCACCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtctcccatatttgatcttgtttttgctgatatgtattggtgggttgaattgcagGTACAACACCTAATAGAGAATTGTTTGATCTTCCACATGAGTAAAGAAGAGTGCATGGAAGCCCTCTCCAAACATGCAAACATCGAACCCGTCATCACCT
tgctgat putative branch site (score: 3)
atatttgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgactcaaatcatatgtaacatcatttttcatgcccaggtctcccatatttgatcttgtttttgctgatatgtattggtgggttgaattgcagGTACAACACCTAATAGAGAATTGTTTGATCTTCCACATGAGTAAAGAAGAGTGCATGGAAGCCCTCTCCAAACATGCAAACATCGAACCCGTCATCACCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG