Sequence
atgc intronic sequence ATGC exonic sequencegtatgacaagagaagaatcaccaccatttccacaatacaaacattcaagtagatgcagtaatgtaaaccctgtggataacatctttatccttaattttatattatgttgttatccagAATGGAAAACAAATGGTGCAAGAGGGGGCCTTGACTGCTTTAGCGTCTGTTGCTGATTCATCTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g00500.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os07g38760.1 (Oryza sativa), 3'ss of exon 3
gtatgacaagagaagaatcaccaccatttccacaatacaaacattcaagtagatgcagtaatgtaaaccctgtggataacatctttatccttaattttatattatg-ttgttatccagAATGGAAAACAAATGGTGCAAGAGGGGGCCTTGACTGCTTTAGCGTCTGTTGCTGATTCATCTCAG
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----------------gtatccacctccctcaccagttaaatatattttattgtcttttagtgttatttttttgaac--tagtagaacatgtgctaatatattgtacttatgctttagAACGGCAAGCAAATGGTGCAAGAGGGAGCATTGACAGCTTTAGCATCAGTAGCTGATTCATCGCAG
upper sequence: Vv06s0004g00500.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM5G887631_T01 (Zea mays), 3'ss of exon 3
gtatgacaagagaagaatcaccaccatttccacaatacaaacattcaagtagatgcagtaatgtaaaccct-gtggataacatctttatccttaattttatattatgttgttatccagAATGGAAAACAAATGGTGCAAGAGGGGGCCTTGACTGCTTTAGCGTCTGTTGCTGATTCATCTCAG
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--------------gtat-gcatttacttgtgttgaattaggtatcagcttgctttaaaaatatttgttatcatggttagtaaacatgctaactgctcttgttcatatt-----ctagAATGGAAAGCAAATGGTGCAGGAGGGAGCATTGACAGCTTTAGCGTCAGTAGCAGATTCATCACAG
upper sequence: Vv06s0004g00500.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA05G28950.1 (Glycine max), 3'ss of exon 5
gtatgacaagagaagaatcaccaccatttccacaatacaaacattcaagtagatgcagtaatgtaaaccctgtggataacatctttatccttaatttt--atattatgt-tgttatccagAATGGAAAACAAATGGTGCAAGAGGGGGCCTTGACTGCTTTAGCGTCTGTTGCTGATTCATCTCAG
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gtatatttataga-gaattat-----tctcaagaataatgttattatggt-----cattttgctaaattatcgtaattattccttca--cttaattttggatattctatacatttttcagAATGGTAAGCAGATGGTGCAAGAAGGTGCCTTAACTGCTTTGGCATCAGTTGCTGATTCTTCTCAG
upper sequence: Vv06s0004g00500.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G12120.1 (Glycine max), 3'ss of exon 3
gtatgacaagagaagaatcaccaccatttccacaatacaaacattcaagtagatgcagtaatgtaaaccctgtggataacatctttatccttaatttt--atattatgt-tgttatccagAATGGAAAACAAATGGTGCAAGAGGGGGCCTTGACTGCTTTAGCGTCTGTTGCTGATTCATCTCAG
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gtatatttaatagagtattat-----tctcaagaataatgttattatggtcattttgctgaattatcatatgattgaattattctttcacctaattttggatattctatacattttttagAATGGTAAGCAGATGGTGCAAGAAGGTGCCTTAACTGCTTTGGCATCAGTTGCTGATTCTTCTCAG
upper sequence: Vv06s0004g00500.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G19820.1 (Arabidopsis thaliana), 3'ss of exon 3
gtatgacaagagaagaatcaccaccatttccacaatacaaacattcaagtagatgcag-taatgtaaaccctgtggat--aacatctttatccttaattttatattatgttgttatccagAATGGAAAACAAATGGTGCAAGAGGGGGCCTTGACTGCTTTAGCGTCTGTTGCTGATTCATCTCAG
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-----gtaagtccattgtgtaaattatttct-taagataaatagctaaaaaagagcaaatattttgcactctattgattttaaatgattaactttggattataatggtgtt-tcgtacagAATGGTAAACAAATGGTGCAAGAAGGAGCTTTAACTGCTCTTGCTTCAGTGGCTGATTCATCACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaaaccctgtggataacatctttatccttaattttatattatgttgttatccagAATGGAAAACAAATGGTGCAAGAGGGGGCCTTGACTGCTTTAGCGTCTGTTGCTGATTCATCTCAG
ataacatctttatcct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgacaagagaagaatcaccaccatttccacaatacaaacattcaagtagatgcagtaatgtaaaccctgtggataacatctttatccttaattttatattatgttgttatccagAATGGAAAACAAATGGTGCAAGAGGGGGCCTTGACTGCTTTAGCGTCTGTTGCTGATTCATCTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT