Sequence
atgc intronic sequence ATGC exonic sequencegtaagttcaaacttcccgtgcttgtggaaagtatttaaatttgttattagtggaccatgcaattgaaccttctaataactaagttgatttgatagaccttctacatagaattcatctggcccttttctttttatctattgcagATTTTACTTAGGGGTGCTAATAGGGATGAATTGAAGAAAGTGAAGCATGTAATCCAATATGGAATTTTTGCTGCCTATCACTTGGCTTTGGAGACGTCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g00380.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os08g34950.1 (Oryza sativa), 3'ss of exon 4
gtaagttcaaacttcccgtgcttgtggaaagtatttaaatttgttattagtggaccatgcaattgaaccttctaataactaagttgatttgatagaccttctacatagaattcatctggcccttttctttttatctattgcagATTTTACTTAGGGGTGCTAATAGGGATGAATTGAAGAAAGTGAAGCATGTAATCCAATATGGAATTTTTGCTGCCTATCACTTGGCTTTGGAGACGTCTT
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------------------------------cgcttcacgatcaacgttaata---cttactctagtactttacgaaag---aattgaat-aataaaattg--aagtcaatttcatgtg-ctaactattcctaatctgt---agATATTGCTCAAAGGAGCTAATGGCGATGAGCTGAAAAAAGTGAAGCATGTTGTGCAATATGGAGTCTTTGCAGCCTATCACTTGGCTCTGGAAACATCTT
upper sequence: Vv09s0002g00380.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G01590.1 (Glycine max), 3'ss of exon 6
gtaagttcaaacttcccgtgcttgtggaaagtatttaaatttgttattagtggaccatgcaattgaaccttctaataactaagttgatttgatagaccttctacatagaattcatctggcccttttctttttatctattgcagATTTTACTTAGGGGTGCTAATAGGGATGAATTGAAGAAAGTGAAGCATGTAATCCAATATGGAATTTTTGCTGCCTATCACTTGGCTTTGGAGACGTCTT
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-------------------------aataatcatctaatactcttact---------ttagatggcattttattgtaaacaagt------aatggagaccgtatgaagagttcattta--tcttgtatttctaattga-acagATTTTACTTAAAGGTGCTGACAAGGATGAATTGAAGAAGGTAAAGCATGTGGTTCAGTATGGAGTTTTTGCAGCTTATCATTTGGCTTTGGAGACATCTT
upper sequence: Vv09s0002g00380.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA07G05100.1 (Glycine max), 3'ss of exon 4
gtaagttcaaacttcccgtgcttgtggaaagtatttaaatttgttattagtggaccatgcaattgaaccttctaataactaagttgatttgatagaccttctacatagaattcatctggcccttttctttttatctattgcagATTTTACTTAGGGGTGCTAATAGGGATGAATTGAAGAAAGTGAAGCATGTAATCCAATATGGAATTTTTGCTGCCTATCACTTGGCTTTGGAGACGTCTT
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-------------------------------catctaa---tatgtttagttattatttagatggaattttattgtaaacaagt------aatggagactgtatgaagagttcattta--tcttgtgtttctaattga-acagATTTTACTTAAAGGTGCTGACAAGGATGAATTGAAGAAGGTAAAACATGTGGTTCAGTATGGAGTTTTTGCAGCTTACCATTTGGCTTTGGAGACATCTT
upper sequence: Vv09s0002g00380.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G14270.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaagttcaaacttcccgtgcttgtggaaagtatttaaatttgttattagtggaccatgcaattgaaccttctaata-actaagttgatttgatagaccttctacatagaatt-catctggcccttttctttttatctattgcagATTTTACTTAGGGGTGCTAATAGGGATGAATTGAAGAAAGTGAAGCATGTAATCCAATATGGAATTTTTGCTGCCTATCACTTGGCTTTGGAGACGTCTT
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---------------------------------------------gtaagcattcccaactattagaattt--aatacacagaccagattttatattattgcctcatgatattacctcttgctttttatgtcccttcttcttcagATTTTGCTGAGGGGTGCAAATGAAGATGAGTTGAAAAAAGTGAAGCATGTGGTCCAGTATGGAGTTTTTGCAGCTTATCATTTGGCACTCGAAACATCGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgatagaccttctacatagaattcatctggcccttttctttttatctattgcagATTTTACTTAGGGGTGCTAATAGGGATGAATTGAAGAAAGTGAAGCATGTAATCCAATATGGAATTTTTGCTGCCTATCACTTGGCTTTGGAGACGTCTT
tctggcccttttcttt CT-rich tract
ttttctttttatctat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttcaaacttcccgtgcttgtggaaagtatttaaatttgttattagtggaccatgcaattgaaccttctaataactaagttgatttgatagaccttctacatagaattcatctggcccttttctttttatctattgcagATTTTACTTAGGGGTGCTAATAGGGATGAATTGAAGAAAGTGAAGCATGTAATCCAATATGGAATTTTTGCTGCCTATCACTTGGCTTTGGAGACGTCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA