Sequence
atgc intronic sequence ATGC exonic sequence...taagcctggataaacacataggtagtttggtaaaaatattcaattctaccttggtttaatgatggctttctcctcctttattcccaatcacttaatttagGGGTCGCCATGCATCAAAAGTGACTGAAGAGGAAGAAGATGAAGAGTGCCTGAAAGAGGAAGAAGATGGTTTATCTGGGACAGGAAACACGCGGCTGGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os01g27040.1 (Oryza sativa), 3'ss of exon 3
-taagcctggataaacacataggtagtttggtaaaaatattcaattctaccttggtttaatgatggctttctcctcctttattcccaatcacttaatt-tagGGGTCGCCATGCATCAAAAGTGACTGAAGAGGAAGAAGATGAAGAGTGCCTGAAAGAGGAAGAAGATGGTTTATCTGGGACAGGAAACACGCGGCTGGTG
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ctatttatgtgcagggtcataat--atgtaattgattttaggaatcttgtgcctcttttttgatgttccatgatttgattgtctaacattggtaaactgtagGGGACGCCATGCCTCAAAGATGACAGAAGAGGAGGAAGATGAAGAATACCTTAAAGAAGAGGAAGATGCCCTTGCTGGTTCAGGGGGAACACGCTTGCTT
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AC235535.1_FGT001 (Zea mays), 3'ss of exon 3
---taagcc-tggataaac-acataggtagtttggtaaaaatattcaattctaccttggtttaatgatggctttctcctcctttattcccaatcacttaatttagGGGTCGCCATGCATCAAAAGTGACTGAAGAGGAAGAAGATGAAGAGTGCCTGAAAGAGGAAGAAGATGGTTTATCTGGGACAGGAAACACGCGGCTGGTG
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ccataagacatagctcaatgaaattcgaggttcttttc---tgtctacatctacgttaacttgttaagtaatttatttgttgatgagttgagtccatt--tgtagGGGACGCCATGCATCAAAGATGACTGAAGAAGAGGAAGATGAAGAATACCTCAAAGAGGAAGAAGATGCCCTTGCTGGTGCAGGGGGAACACGTTTAGTT
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 3
-----taagcctggataaacacataggtagtttggtaaaaatattcaattct-accttg-gtttaatgatggctttctcctcctttattcccaatcacttaatttagGGGTCGCCATGCATCAAAAGTGACTGAAGAGGAAGAAGATGAAGAGTGCCTGAAAGAGGAAGAAGATGGTTTATCTGGGACAGGAAACACGCGGCTGGTG
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ttggcaaggttcaaacaagcattaaagagttgtgatcaa----tctgatactgaccttgtgcattttaaaaaaacacattgcattaaatcactgtc---tattttagGGGTCGCCATGCATCAAAAGTAACTGAAGAAGAGGAAGATGAAGAATACCTTAAAGGGGAAGAAGATGGCTTAGCAAATACACGACTGGTGACTCAACCA
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA17G02640.1 (Glycine max), 3'ss of exon 3
----taagcctggataaacacataggtagtttggtaaaaatattcaattctaccttg---gtttaatgatggctttctcctcctttattcccaatcacttaatttagGGGTCGCCATGCATCAAAAGTGACTGAAGAGGAAGAAGATGAAGAGTGCCTGAAAGAGGAAGAAGATGGTTTATCTGGGACAGGAAACACGCGGCTGGTG
||| | | || ||| |||| || | | | | | |||||| ||| | || || | | | || | || | ||| || ||||| |||||||||||||||||||| |||||||| || ||||||||||| | ||| |||| |||||||||||| ||| | ||| | | |
ttggcaaggttcaagcaatcaataaagagtt--gtgattaatctgatattgaccttgtgcattttaaaataact--catcgcattaaatc---accacctattttagAGGTCGCCATGCATCAAAAGTAACTGAAGAAGAGGAAGATGAAGAATACCTTAAAGGGGAAGAAGATGGCTTAGCAAATACACGGTTGGTGACTCAACCA
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA13G28720.1 (Glycine max), 3'ss of exon 3
-taagcctggataaacacataggtagtttggtaaaaatattcaattctaccttggtttaatgatggctttctcctcctttattcccaatcacttaatttagGGGTCGCCATGCATCAAAAGTGACTGAAGAGGAAGAAGATGAAGAGTGCCTGAAAGAGGAAGAAGATGGTTTATCTGGGACAGGAAACACGCGGCTGGTG
| | || | | | || |||| | | | | || | | || | || | | | ||| | | ||| ||||||||||||||||| || | ||||| || |||||||||||||| | ||| |||| |||||||||||| || | ||| | | |
gttctctacgagtctgatttcagaagaacactaaagagacgacactgactttttgctgcataaaggaacttatc-ctaacattttatgtttgtgtattaagGGGTCGCCATGCATCCAATTTCACTGAGGAAGAAGAAGATGAAGAATACCTAAAAGGAGAAGAAGATGGTCTAGCAAACACACGTCTGGTGACACAACCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctaccttggtttaatgatggctttctcctcctttattcccaatcacttaatttagGGGTCGCCATGCATCAAAAGTGACTGAAGAGGAAGAAGATGAAGAGTGCCTGAAAGAGGAAGAAGATGGTTTATCTGGGACAGGAAACACGCGGCTGGTG
acttaat putative branch site (score: 4)
ctttctcctcctttat CT-rich tract
aatcacttaattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taagcctggataaacacataggtagtttggtaaaaatattcaattctaccttggtttaatgatggctttctcctcctttattcccaatcacttaatttagGGGTCGCCATGCATCAAAAGTGACTGAAGAGGAAGAAGATGAAGAGTGCCTGAAAGAGGAAGAAGATGGTTTATCTGGGACAGGAAACACGCGGCTGGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - -ggataaa
- - - - - - - - - - - - - - - -aaaaata
- - - - - - - - - - - - - - - - - - - - - - - taccttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - atgatgg