Sequence
atgc intronic sequence ATGC exonic sequencegtaatgtctattcaactttgtaaatacatcttttgatgcttttcttgacatagagcttcttagcttacagccccttttccttatactgcagGAGCTGCCATAGGATTCAAGTTGGACAGCCTTCTTAAATTGGCTGATACTCGTGCAAGAAACAACAAAATGACTTTAATGCATTACTTGTGTAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0033g01360.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: LOC_Os10g02980.1 (Oryza sativa), 3'ss of exon 8
gtaatgtctattcaact-ttgtaaatacatcttttgatgcttttcttgacatagagcttcttagcttacagccccttttccttatactgcagGAGCTGCCATAGGATTCAAGTTGGACAGCCTTCTTAAATTGGCTGATACTCGTGCAAGAAACAACAAAATGACTTTAATGCATTACTTGTGTAAG
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-------gtatcaaatagttgaagaaaaattatggaataatttcttcgat---ggtctttttaatgtgctga-----ttggttgaac---agGATCTGCGGTTGGCTTCAGATTAGACAGTCTTCTTAAATTATCAGATACTCGAGCTAGAAACAACAAGATGACACTAATGCATTATTTATGCAAG
upper sequence: Vv02s0033g01360.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA04G14770.1 (Glycine max), 3'ss of exon 12
---------------------------------------------------gtaatgtctattca-actttgtaa--atacatcttttgatgcttttcttgacatagagcttcttagcttacagccccttttccttat-actgcagGAGCTGCCATAGGATTCAAGTTGGACAGCCTTCTTAAATTGGCTGATACTCGTGCAAGAAACAACAAAATGACTTTAATGCATTACTTGTGTAAG
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gtatctttttgttaactctcattgtacttgagtgtaatttgcgatggatttgtagtttccattttcacctcaccatcattgacaaaatgagaagtttct----gcaatgctgtttagattatatccttttatgttgatcattgcagGATCAGCTGTTGGATTCAAATTGGATAGCCTTCTTAAATTATCTGATACTCGTGCAAGAAATAACAAAATGACTTTAATGCATTATTTGTGTAAG
upper sequence: Vv02s0033g01360.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA09G34830.1 (Glycine max), 3'ss of exon 12
--------------------------------------gtaatgtctattcaactttgtaaatacatcttttgatgcttttcttgacatagagcttcttagcttacagccccttttcct-tatactgcagGAGCTGCCATAGGATTCAAGTTGGACAGCCTTCTTAAATTGGCTGATACTCGTGCAAGAAACAACAAAATGACTTTAATGCATTACTTGTGTAAG
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gtatctttttgttaactctcattatttgagatggatttgtagtttccatttcacctcaccatcat-tggcaaaatgggaaagtttctgcaatgctgtttaggttgaatccttttatgttgctcattgcagGATCAGCTGTTGGATTCAAATTGGATAGCCTTCTTAAATTATCTGATACCCGTGCAAGAAATAACAAAATGACTTTAATGCATTATTTGTGTAAG
upper sequence: Vv02s0033g01360.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AT1G31810.1 (Arabidopsis thaliana), 3'ss of exon 12
gtaatgtctattcaactttgtaaatacatcttttgatgcttttcttgacat----agagcttcttagcttacagccccttttccttatactgcagGAGCTGCCATAGGATTCAAGTTGGACAGCCTTCTTAAATTGGCTGATACTCGTGCAAGAAACAACAAAATGACTTTAATGCATTACTTGTGTAAG
| | || || ||||| |||| || | ||| ||| ||| | | ||||| | |||||| |||| | || ||||| | ||||| || |||||||| ||||||||||||| ||||| |||||||||||||| ||||||||||| || |||
----------------gtatcatattttcctattgatttcaaatttgatattctgaaagcatct--gctcataatgccttt-----gtgttgcagGGTCTGCTGTTGGGTTCAAACTAGACAGTCTCCTTAAATTATCTGATACTCGTGCTAGAAATAACAAAATGACTTTGATGCATTACTTATGCAAG
upper sequence: Vv02s0033g01360.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: PP1S13_282V6.1 (Physcomitrella patens), 3'ss of exon 12
------------------------------------------------------------------------------------------------gtaatgtctattcaactttgtaaatacatc-ttttgatgcttttcttgacatagagcttc--ttagcttacagccccttttccttatactg----cagGAGCTGCCATAGGATTCAAGTTGGACAGCCTTCTTAAATTGGCTGATACTCGTGCAAGAAACAACAAAATGACTTTAATGCATTACTTGTGTAAG
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gtttgtcacataacgtcctggaatcttttgaacctacatttagacttttcaagagttctctacagttatatagcagcttcttggttgcctaatattatatcctctatgagattctgttattgtgggattctggtagtgaagcagattacatgtttcctttagatcctaacatacttgaaacatgtgaaagacagGCTCTGCCATTGGTTTCAAGTTGGACAGCCTTCTTAAGCTTACTGATACTCGTGCTCGGAACAATAGAATGACTCTCATGCACTATTTGTGCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcttttcttgacatagagcttcttagcttacagccccttttccttatactgcagGAGCTGCCATAGGATTCAAGTTGGACAGCCTTCTTAAATTGGCTGATACTCGTGCAAGAAACAACAAAATGACTTTAATGCATTACTTGTGTAAG
agcttac putative branch site (score: 3)
ccccttttccttatac putative PPT
ttatact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatgtctattcaactttgtaaatacatcttttgatgcttttcttgacatagagcttcttagcttacagccccttttccttatactgcagGAGCTGCCATAGGATTCAAGTTGGACAGCCTTCTTAAATTGGCTGATACTCGTGCAAGAAACAACAAAATGACTTTAATGCATTACTTGTGTAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA