Sequence
atgc intronic sequence ATGC exonic sequence...agagctttaaattctaggaagaacttaattcacgcctattagcttatcagtaaatctttattatctaatggtgtgatttccttttgcatgtttgtaacagTCGGTCTCATGCCATCTTCACAATCTCATTAGAACAGATGCGCAAACTCCATCCAACTTTTCCTGGTGATAATTGTTCAAATGAGGAGATGGGTGAGGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g00130.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os09g02650.1 (Oryza sativa), 3'ss of exon 4
agagctttaaattctaggaagaacttaattcacgcctattagcttatcagtaaat-ctttattatctaatggtgtgatttccttttgcat--gtttgtaacagTCGGTCTCATGCCATCTTCACAATCTCATTAGAACAGATGCGCAAACTCCATCCAACTTTTCCTGGTGATAATTGTTCAAATGAGGAGATGGGTGAGGAG
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--tgctttaggacacattca-atcagattggttacctgatattccgttactaaattctacaaactttaatgaactttatgcttttggtttcggcatgtaatagTCGTTCCCATGCCATCTTCACAATCACATTGGAGCAGATGCGCAAAGCAGATCCCATCATGACTTTAGATGGAATGCCTATTGAAGAGATGAATGAAGAC
upper sequence: Vv07s0031g00130.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G026218_T02 (Zea mays), 3'ss of exon 4
agagctttaaattctaggaagaacttaattcacgcctattagcttatcagta-aatctttattatctaatggtgtgatttccttttgcatgtt-tgtaacagTCGGTCTCATGCCATCTTCACAATCTCATTAGAACAGATGCGCAAACTCCATCCAACTTTTCCTGGTGATAATTGTTCAAATGAGGAGATGGGTGAGGAG
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-gtgttccatgtgttaaggttatgaatatttcttgatattctgctaccatcatgatgcttgttttcaatgaaccttatactctggt-tatgccatgtaatagTCGTTCCCATGCCATCTTCACAATCACATTGGAGCAGATGCGCAAAATAGACCCCATCATGACTGCAGATGGAATGCCTATTGAAGAGATGAATGAAGAC
upper sequence: Vv07s0031g00130.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA05G15750.1 (Glycine max), 3'ss of exon 4
---agagctttaaattctaggaagaacttaattcacgcctattagcttatcagtaaatctttattatctaatgg--tgtgatttccttttgcatgtttgtaacagTCGGTCTCATGCCATCTTCACAATCTCATTAGAACAGATGCGCAAACTCCATCCAACTTTTCCTGGTGATAATTGTTCAAATGAGGAGATGGGTGAGGAG
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gcaacagatttgagtgat-ggaaaagtgttttttatatg-gttaccattatatttaatctttttaatctaataacttgtggttccttttt---tgcttgtattagTCGATCACATGCCATTTTCACAATCACACTACAACAGATGCGCAAACTCCATTCTGGTTCTCCCATCAATGACTCTTCAGACGAGGATATGGGTGAAGAA
upper sequence: Vv07s0031g00130.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G50240.1 (Arabidopsis thaliana), 3'ss of exon 4
----agagctttaaattctag----gaagaacttaattcacgcctattagcttatcagtaaatctttattatctaatggtgtgatttccttttgcatgtttgtaacagTCGGTCTCATGCCATCTTCACAATCTCATTAGAACAGATGCGCAAACTCCATCCAACTTTTCCTGGTGATAATTGTTCAAATGAGGAGATGGGTGAGGAG
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gtgtgtatctctatacccatgctccataagaagcaagacatagctttaaagttaccattaa-tgatgcttagccagtagtaaaatgtagttatattcttcttatacagTCGGTCACATGCCATCTTCACGATTACCTTAGAACAAATGCGCAAGATATCTTCAATCTCAGTGGTTAAAGACACCGTAGATGAAGATATGGGTGAGGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atcagtaaatctttattatctaatggtgtgatttccttttgcatgtttgtaacagTCGGTCTCATGCCATCTTCACAATCTCATTAGAACAGATGCGCAAACTCCATCCAACTTTTCCTGGTGATAATTGTTCAAATGAGGAGATGGGTGAGGAG
atctaat putative branch site (score: 3)
taaatctttattatct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agagctttaaattctaggaagaacttaattcacgcctattagcttatcagtaaatctttattatctaatggtgtgatttccttttgcatgtttgtaacagTCGGTCTCATGCCATCTTCACAATCTCATTAGAACAGATGCGCAAACTCCATCCAACTTTTCCTGGTGATAATTGTTCAAATGAGGAGATGGGTGAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - ggaagaa
- - - - - - - - - - - - - - -tcacgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggtgtg