Sequence
atgc intronic sequence ATGC exonic sequence...gctgaagttgcagacaatttttcatatcatcctctatataataatatttttgcttcttatggttttatattaatgggattgcactggctctgttttgcagTTCCACTGGAACTCGAGATCCTGTAACATCTGCATTGCACATTGTCCTTGGTAAAAGAGTGTGCCTTGATATAGCTCAAGTTGTGAGATGGAAAACAACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0013g01750.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os02g43906.1 (Oryza sativa), 3'ss of exon 3
gctgaagttgcagacaatt--tttcatatcatcctctatataataat-atttttgcttcttatggttttatattaatgggattgcactggctctgttttgcagTTCCACTGGAACTCGAGATCCTGTAACATCTGCATTGCACATTGTCCTTGGTAAAAGAGTGTGCCTTGATATAGCTCAAGTTGTGAGATGGAAAACAACT
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cttgtgatgactaaaaataagcccaatattgttgcatacaaattattgatcatcactttcagttcttttctggttgttgaa--gccctgttgatgttt-gcagTACAACTGGGGAGCGAGATCCTGTGACTTCTGCTCTGCTTATTATCCTCGGCAGAAGGATATCACTTGATATAGCTCAAGTTGTCAGATGGAAAAGTAGC
upper sequence: Vv16s0013g01750.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA04G14280.1 (Glycine max), 3'ss of exon 8
---gctgaagttgcagacaatttttcatatcatcctctatataataatatttttgcttcttatggttttatattaatgggattgcactggctctgttttgcagTTCCACTGGAACTCGAGATCCTGTAACATCTGCATTGCACATTGTCCTTGGTAAAAGAGTGTGCCTTGATATAGCTCAAGTTGTGAGATGGAAAACAACT
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taaatttgtgttgccaatatttttcagtgt-atccttaatagttttctgatacaattcacatgggttatatgaaattctgaattcac--actgtattttgtagTACAACTGGAACTCGAGACCCTATTACTTCTGCATTGCATATTGTCCTTGGTAAAAGGGTGCACCTTGACATAGCTCAAGTTGTACGGTGGAAAAGAACT
upper sequence: Vv16s0013g01750.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA06G47530.1 (Glycine max), 3'ss of exon 8
----gctgaagttgcagacaatttttcatatcatcctcta-tataataatatttttgcttcttatggttttatattaatgggattgcactggctctgttttgcagTTCCACTGGAACTCGAGATCCTGTAACATCTGCATTGCACATTGTCCTTGGTAAAAGAGTGTGCCTTGATATAGCTCAAGTTGTGAGATGGAAAACAACT
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ttaaatttgtgttgccaatatttttccgtgtgtccttatagttttctgatac----aattcacatgggtt-atatgaaattctgaatacccactgtattttgtagTACAACTGGAACTCGAGATCCTATTACTTCTGCATTGCTTATTGTCCTTGGTAAAAGGGTGCACCTTGACATAGCTCAAGTTGTACGGTGGAAAAGAACT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttttgcttcttatggttttatattaatgggattgcactggctctgttttgcagTTCCACTGGAACTCGAGATCCTGTAACATCTGCATTGCACATTGTCCTTGGTAAAAGAGTGTGCCTTGATATAGCTCAAGTTGTGAGATGGAAAACAACT
tattaat putative branch site (score: 2)
ctctgtttt putative PPT
ttcttatggttttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gctgaagttgcagacaatttttcatatcatcctctatataataatatttttgcttcttatggttttatattaatgggattgcactggctctgttttgcagTTCCACTGGAACTCGAGATCCTGTAACATCTGCATTGCACATTGTCCTTGGTAAAAGAGTGTGCCTTGATATAGCTCAAGTTGTGAGATGGAAAACAACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - -gcagaca
- - - - - - - - - - - - - -catcctc