Sequence
atgc intronic sequence ATGC exonic sequence...gaaagcaacatgttcattcttgtctcttcttattcactacacttttccgttcttattgtgttcttgacttgtaactttctttcctgttggtgattttcagTTCCTTTCCGACATGGGGAACGCATTGGCTTTAGTTACCTTGTCTCCCAGAAATATACTGGAGATAATGCTACAATTACAGTTCTTCGCGATTCTAAGAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g07900.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os02g50880.1 (Oryza sativa), 3'ss of exon 4
gaaagcaacatgttcattcttgtctcttcttattcactaca-cttttccgttcttattgtgttcttgac-ttgtaactttctttcctg----ttggtg-attttcagTTCCTTTCCGACATGGGGAACGCATTGGCTTTAGTTACCTTGTCTCCCAGAAATATACTGGAGATAATGCTACAATTACAGTTCTTCGCGATTCTAAGAT
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-------tcttgtttacatttgaaaagttttgatgtcaacttcctaaccatttagaaaataaatctaatattgtcatattttctgacaaatcttgttgtgtaaccagTTCCTTTCAGGCACGGCGAGCGCATTGGCTTCAGTTATCTTGTTTCCCAGAAATATACTGGCGAGAAGGCTCTAGTTAAAGTCCTGCGCAATTCGAAAGT
upper sequence: Vv17s0000g07900.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AC212112.4_FGT002 (Zea mays), 3'ss of exon 4
--gaaagcaacatgttcattcttgtctcttctta-ttcactacacttttccgttcttattgtgttc-ttgacttgtaactttctttcctgttggtgattttcagTTCCTTTCCGACATGGGGAACGCATTGGCTTTAGTTACCTTGTCTCCCAGAAATATACTGGAGATAATGCTACAATTACAGTTCTTCGCGATTCTAAGAT
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ttgggtatggaagttatgttgaaagttgtgctaaatgtactagaaatggcaagcatc-tcatgctaatttgtttcttaccatcttttttgttggtcaa---cagTTCCTTTCAGGCATGGTGAGCGCATTGGCTTCAGTTATCTGGTTTCTCAGAAATATACTGGAGAGAAAGCTCTTGTTAAAGTTCTGCGTGATTCAAAAGT
upper sequence: Vv17s0000g07900.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA17G09970.1 (Glycine max), 3'ss of exon 4
gaaagcaacatgttcattcttgtctcttct-tattcactacacttttccgttcttattgtgttcttgacttgtaactttctttcctgttggtga----ttttcagTTCCTTTCCGACATGGGGAACGCATTGGCTTTAGTTACCTTGTCTCCCAGAAATATACTGGAGATAATGCTACAATTACAGTTCTTCGCGATTCTAAGAT
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-----cttcatgcaattaatcatctctcctgtggccaatataatatatcatagatttgagtttaacagtctgtaatattttaaactcttggggtgttcttttcagTTCCATTCCGTCATGGAGAGCGCATTGGTTTCAGTTATCTCATATCACAGAAATATACTGGGGATAATGCAGCAATCAAAGTACTGCGGAATTCAGACAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccgttcttattgtgttcttgacttgtaactttctttcctgttggtgattttcagTTCCTTTCCGACATGGGGAACGCATTGGCTTTAGTTACCTTGTCTCCCAGAAATATACTGGAGATAATGCTACAATTACAGTTCTTCGCGATTCTAAGAT
ttgtaac putative branch site (score: 2)
ttttc putative PPT
tcttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaaagcaacatgttcattcttgtctcttcttattcactacacttttccgttcttattgtgttcttgacttgtaactttctttcctgttggtgattttcagTTCCTTTCCGACATGGGGAACGCATTGGCTTTAGTTACCTTGTCTCCCAGAAATATACTGGAGATAATGCTACAATTACAGTTCTTCGCGATTCTAAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
-aaagcaa
- - - - catgttc
- - - - - - - - - - - tctcttc
- - - - - - - - - - - - - - - - - cactaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgacttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cctgttg