Sequence
atgc intronic sequence ATGC exonic sequencegtactccatttctcagcgaatatatttcaattctcatcagattttgtaattctaatgaaatctgttgggtggttttcagGTTCTACAACGGATATTAATGGGAACTGATGTTGTGAAAAACGTGAACAAGAACAATGCCTCACATGCTGTTCTGTTTGAAGCCCTTGCTCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os03g02150.1 (Oryza sativa), 3'ss of exon 7
------gtactcc-atttctcagcgaatatatttca-attctcatcagattttgtaattctaatgaaatctgttgggtggttttcagGTTCTACAACGGATATTAATGGGAACTGATGTTGTGAAAAACGTGAACAAGAACAATGCCTCACATGCTGTTCTGTTTGAAGCCCTTGCTCTT
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gtacaactattttgactatttcacatctggtcttcacatatacaacacagttcttgaatgtaatgatacttctttcat--tcttcagGTTTTACAGCGCATTTTAATGGGTACTGATGTTGTTAAAAACGTCAACAAGAATAATGCCTCACATGCTGTTCTCTTTGAAGCTCTTGCTCTT
upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G137236_T01 (Zea mays), 3'ss of exon 8
gtactccatttctcagcgaatatatttcaattctcatcagattttgtaattctaatgaaatctgttgggtggttttcagGTTCTACAACGGATATTAATGGGAACTGATGTTGTGAAAAACGTGAACAAGAACAATGCCTCACATGCTGTTCTGTTTGAAGCCCTTGCTCTT
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gtactacctttttttacttctctactgaacctgtactaaaatgtgtggattataatgatat-tattgt-catccttcagGTTTTACAGCGCATTTTGATGGGTACTGATGTTGTTAAAAACGTTAACAAGAACAATGCCTCACATGCTGTTCTCTTTGAAGCTCTTGCTCTG
upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G700148_T01 (Zea mays), 3'ss of exon 7
---gtactccatttctcagcgaatatatttcaattctcatcagattttgtaattctaatgaaatctgttgggtggttttcagGTTCTACAACGGATATTAATGGGAACTGATGTTGTGAAAAACGTGAACAAGAACAATGCCTCACATGCTGTTCTGTTTGAAGCCCTTGCTCTT
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gtactaccttttcttttaacttttctagtgcacctgtacaaaaatgtgtggactgcaatgat-tttgttgt-tgtccttcagGTTTTACAGCGTATTTTGATGGGTACTGATGTTGTTAAAAATGTTAACAAGAACAATGCCTCACATGCTGTTCTCTTTGAAGCTCTTGCTCTG
upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA12G30520.1 (Glycine max), 3'ss of exon 7
gtactccatttctcagcga-atatatttcaattctcatcagattttgtaattctaatgaaatctgttgggtggttttcagGTTCTACAACGGATATTAATGGGAACTGATGTTGTGAAAAACGTGAACAAGAACAATGCCTCACATGCTGTTCTGTTTGAAGCCCTTGCTCTT
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gtttgtaatatcaaattgacacatccaaaaactttctttagttaaca-aattttagtgagccttgattaatcattt-cagGTCTTACAAAGGATACTGATGGGAACTGATGTTGTGAAAAATGTGAACAAAAATAATGCATCCCATGCTGTTCTTTTTGAAGCCCTTGCTCTG
upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA17G05410.1 (Glycine max), 3'ss of exon 7
gtactccatttctcagcga-atatatttcaattctcatcagattttgtaattctaatgaaatctgttgggtggttttcagGTTCTACAACGGATATTAATGGGAACTGATGTTGTGAAAAACGTGAACAAGAACAATGCCTCACATGCTGTTCTGTTTGAAGCCCTTGCTCTT
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gtttgtaatatcaaattgacacatccaaaaaaaaaaaaatagttaacaaattttagtgagccttgattaatcattt-cagGTCTTACAAAGGATACTGATGGGGACTGATGTTGTAAAAAATGTGAACAAAAATAATGCATCCCATGCCGTTCTTTTTGAAGCTCTTGCTCTG
upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT5G22770.1 (Arabidopsis thaliana), 3'ss of exon 7
gtactccatttctcagcgaatatatttca-attctcatcagattttgtaattctaatgaaatctgttgggtggttttcagGTTCTACAACGGATATTAATGGGAACTGATGTTGTGAAAAACGTGAACAAGAACAATGCCTCACATGCTGTTCTGTTTGAAGCCCTTGCTCTT
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gttcaatattttcatgtgtaaatctgtaatatatgtctttgaatttcctctcatggcatggcatttcatggaaatttcagGTCCTTCAGCGAATATTGATGGGGACAGATGTTGTGAAAAATGTGAATAAAAACAATGCGTCTCATGCTGTGCTGTTTGAAGCTCTATCCCTG
upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT5G22780.1 (Arabidopsis thaliana), 3'ss of exon 7
gtactccatttctca-gcgaatatatttcaattctcatcagattttgtaattctaatgaaatctgttgggtggttttcagGTTCTACAACGGATATTAATGGGAACTGATGTTGTGAAAAACGTGAACAAGAACAATGCCTCACATGCTGTTCTGTTTGAAGCCCTTGCTCTT
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gtacaaattttcttgtgtaaatatctgatatatgtcttcgaaatct----ctctcatggcatttcatggaaa--tttcagGTCCTTCAGCGAATATTGATGGGCACAGATGTTGTGAAAAATGTGAATAAAAACAATGCGTCTCATGCCGTGCTGTTTGAAGCTCTCTCCCTG
upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: PP1S171_160V6.1 (Physcomitrella patens), 3'ss of exon 7
----------------gtactccatttctcagcgaatatatttcaattctcatca-gattttgtaattct----aatgaaatctgttgggtggttttcagGTTCTACAACGGATATTAATGGGAACTGATGTTGTGAAAAACGTGAACAAGAACAATGCCTCACATGCTGTTCTGTTTGAAGCCCTTGCTCTT
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ctctgcgtcacgttttgggtagaggtttatgttagttacagtttaaatgtgactgcgcctctgtaattccttaggatcacaaatttttcttgctgtgcagGTTCTACAAACAATCTTGTTGCGTACAGATGTTGTGAAAAACATTAATAAAAACAATGCATCTCATGCTGTTCTCTTTGAGGCACTTTCTTTG
upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: PP1S507_6V6.1 (Physcomitrella patens), 3'ss of exon 7
------------------gtactccatttctcag---cgaat--atatttcaattctcatcagattttgtaattctaatgaaatctgttgggtggttttcagGTTCTACAACGGATATTAATGGGAACTGATGTTGTGAAAAACGTGAACAAGAACAATGCCTCACATGCTGTTCTGTTTGAAGCCCTTGCTCTT
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cactatttacatccaaatgtattgaattactgaggatcctattgatgtttccatacttatccttttatccttttctattgcgacgtgttacgt--tttgtagACTTTGCAGCGCATTTTGTTGGGAACTGATGTTGTAAAGAATGTCAATAAAAACAATGCCTCGCATGCGGTACTCTTTGAAGCACTCGCTCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcaattctcatcagattttgtaattctaatgaaatctgttgggtggttttcagGTTCTACAACGGATATTAATGGGAACTGATGTTGTGAAAAACGTGAACAAGAACAATGCCTCACATGCTGTTCTGTTTGAAGCCCTTGCTCTT
ttctaat putative branch site (score: 2)
ttttc putative PPT
attttgtaattctaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactccatttctcagcgaatatatttcaattctcatcagattttgtaattctaatgaaatctgttgggtggttttcagGTTCTACAACGGATATTAATGGGAACTGATGTTGTGAAAAACGTGAACAAGAACAATGCCTCACATGCTGTTCTGTTTGAAGCCCTTGCTCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC