Sequence
atgc intronic sequence ATGC exonic sequencegtaggtgcttcaaaatttccattaatcttgcgtttcttttttctattttttgatttgggaaaatggctgaaatctactttgtcattgtagGATCAAAGAGATGTACAATCATTTTAATGAGAGATCTGGGCTGAAGGCTCCTCTGATTGCGGCTGATGTTTATGAAATAATCATGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g01990.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os02g56100.1 (Oryza sativa), 3'ss of exon 2
gtaggtgctt-caaaatttccattaatcttgcgtttcttttttctattttttgatttgggaaaatggctgaaatctactttgtcattgtagGATCAAAGAGATGTACAATCATTTTAATGAGAGATCTGGGCTGAAGGCTCCTCTGATTGCGGCTGATGTTTATGAAATAATCATGAAG
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gtacgttctgatcccttttttcttatttgctggtatagaaatgttgatgatctgtgttgtgaagtggttacgttgatctctgca--tgcagGATAAAGGTCATGTACATGCATTACGATGAGCGATCTGGGCTGTTGGCTCCTCTGATTGCCGATGACGTCTATGAGATCATCATGAAG
upper sequence: Vv07s0031g01990.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA06G15350.1 (Glycine max), 3'ss of exon 2
--gtaggtgcttcaaaatttccatta-atcttgcgtttcttttttcta---ttttttgatttgggaaaatggctgaaatctactttgtcattgtagGATCAAAGAGATGTACAATCATTTTAATGAGAGATCTGGGCTGAAGGCTCCTCTGATTGCGGCTGATGTTTATGAAATAATCATGAAG
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gtgagtgtgaatggaaattgtaattgcgtttttaatttgtttttgttagcgttattttgtgtggttaaa-acttggaattg---tggtggattcagGATCAAGATCATGTACTATCATTTTAATGAGAGATCTGGGCTGAAGGCTCCTCTGATCGCCGATGATGTTTATGAAATAATTATGAAG
upper sequence: Vv07s0031g01990.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA04G39500.1 (Glycine max), 3'ss of exon 2
--gtaggtgcttcaaaatttccattaatcttgcgtttcttttttctatt--ttttgatttgggaaaat--ggctgaaatctactttgtcattgtagGATCAAAGAGATGTACAATCATTTTAATGAGAGATCTGGGCTGAAGGCTCCTCTGATTGCGGCTGATGTTTATGAAATAATCATGAAG
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gtgagtgtgaatggaaatgataattgcgttttcttaatttgtttttgttagcgttgttttgtgaggcttaaacttgaaattg--tggtggattcagGATCAAGATCATGTACTATCATTTTAGTGAGAGATCTGGGCTGAAGGCTCCTCTGATCGCCGATGATGTTTATGAAATAATTATGAAG
upper sequence: Vv07s0031g01990.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA05G32070.1 (Glycine max), 3'ss of exon 2
gtaggtgcttcaaaatttccattaatcttgcgtttcttttttctattttttgatttgggaaaatggctgaaatctactttgtcattgtagGATCAAAGAGATGTACAATCATTTTAATGAGAGATCTGGGCTGAAGGCTCCTCTGATTGCGGCTGATGTTTATGAAATAATCATGAAG
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gtaagtgtgatggag--------agccgtgt-ctgcgttttgttatgaattgttcttt-accgtgggtgaattgtgact----gtttcagGATTAAGGTTATGTATTACCATTTTAATGAGAGATCTGCGATGAAGGCTCCTCTGATTGCTGATGACGTCTATGAAATTATCATCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttttttctattttttgatttgggaaaatggctgaaatctactttgtcattgtagGATCAAAGAGATGTACAATCATTTTAATGAGAGATCTGGGCTGAAGGCTCCTCTGATTGCGGCTGATGTTTATGAAATAATCATGAAG
ttttgat putative branch site (score: 4)
ctttgtc putative PPT
ttctattttttgattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggtgcttcaaaatttccattaatcttgcgtttcttttttctattttttgatttgggaaaatggctgaaatctactttgtcattgtagGATCAAAGAGATGTACAATCATTTTAATGAGAGATCTGGGCTGAAGGCTCCTCTGATTGCGGCTGATGTTTATGAAATAATCATGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT