Sequence
atgc intronic sequence ATGC exonic sequencegttgctaatttattagtgcattaaggcttgactttcctttttgtgtctatgatacttgatttagcattttcatactcactcaacaaatcatttcatccaatccctttaattattttatttgtttttggatgtagTCATTGGCTCGGATGAACAAGAAGGATTCTTGGCTCTTTTGGTGGACAATTTACCTTAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g01960.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G048117_T01 (Zea mays), 3'ss of exon 3
gttgctaatttattagtgcattaaggcttgactttcctttttgtgtctatgatacttgatttagcattttcatactcactcaacaaatcatttcatccaatccctttaattattttatttgtttttggatgtagTCATTGGCTCGGATGAACAAGAAGGATTCTTGGCTCTTTTGGTGGACAATTTACCTTAAT
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--------------------------------------gtctgtgcctgctttgcctgtgatgttaatt--gtattcgtgtgtgaaattgttgcaggttgtaacttgaat----------gttccc---tgcagTCTCTCGCTCGGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACT
upper sequence: Vv07s0005g01960.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G09330.1 (Arabidopsis thaliana), 3'ss of exon 3
---gttgctaatttattagtgcattaaggcttgactttcctttttgtgtctatgatacttgatttagcattttcatactcactcaacaaatcatttcatccaatccctttaattattttatttgtttttggatgtagTCATTGGCTCGGATGAACAAGAAGGATTCTTGGCTCTTTTGGTGGACAATTTACCTTAAT
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gttagcttttcttcacttattcacaaggatatgggttcagcct----gtcga-gaaatgtggggttgtgtttccctttccgttt------tttttttgtatactc-----atgtgttttcatcatttttctatacagTCTTTGGCTCGGATGAACAAGAAAGACTCATGGCTTTTCTGGTGGACACTTTACCTTGCA
upper sequence: Vv07s0005g01960.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S115_65V6.1 (Physcomitrella patens), 3'ss of exon 3
gttgctaatttattagtgcattaaggcttgactttcctttttgtgtctatgatacttgatttagcatt-ttcatactcac--tcaacaaatcatttc-atccaatccctttaattattttatttgtttttggatgtagTCATTGGCTCGGATGAACAAGAAGGATTCTTGGCTCTTTTGGTGGACAATTTACCTTAAT
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-----------------------------------agttttaaggaattgaaggaaaagttcagcattgtttaagattgccatcgaccgagagttgcgaaatgttgactcgagtgattgtgggtgctgtc---tgcagACTTTAGAGACATTGAACAAGAAGGATGCTTGGCTGTTTTGGTGGACGTTGTATCTCACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaacaaatcatttcatccaatccctttaattattttatttgtttttggatgtagTCATTGGCTCGGATGAACAAGAAGGATTCTTGGCTCTTTTGGTGGACAATTTACCTTAAT
ctttaat putative branch site (score: 4)
ttttatttgttttt putative PPT
tttaattattttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgctaatttattagtgcattaaggcttgactttcctttttgtgtctatgatacttgatttagcattttcatactcactcaacaaatcatttcatccaatccctttaattattttatttgtttttggatgtagTCATTGGCTCGGATGAACAAGAAGGATTCTTGGCTCTTTTGGTGGACAATTTACCTTAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA