Sequence
atgc intronic sequence ATGC exonic sequencegtaatgagttggaacttagaactagtatagcttcttctaaattgattatgaggtagtcattttgagtgctaaaagtttttttttttttttttttttttttgctctttcagATTTTTGTAGATGAAGTGATGGAACTGGTTGAGATGGACAACCTCAAGGATGCCATAGTTGGGCTTCCAGGAATCACAGGTTTATCAACAGAACAGAGGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g03640.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: LOC_Os06g36090.2 (Oryza sativa), 3'ss of exon 11
gtaatgagttggaacttagaactagtatagcttcttctaaattgattatgaggtagtcattttgagtgctaaaagtttttttttttttttttttttttttgctctttcagATTTTTGTAGATGAAGTGATGGAACTGGTTGAGATGGACAACCTCAAGGATGCCATAGTTGGGCTTCCAGGAATCACAGGTTTATCAACAGAACAGAGGA
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------atcaggtgttttaattttttgtgaatattgggtggttaatttctgattactaggatttgtcgtcacaatttgtcaaactcacaagttcaattgt----ttccagCAATTTGTTGATGAAGTTATGGAACTAGTGGAGCTCGACAATCTGAAGGATGCGTTAGTTGGCCTGCCTGGAATCACAGGGCTTTCAACAGAGCAAAGGA
upper sequence: Vv09s0002g03640.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GRMZM2G029506_T01 (Zea mays), 3'ss of exon 15
gtaatgagttggaacttagaactagtatagcttcttctaaattgattatgaggtagtcattttgagtgctaaaagttttt---ttttttttttttttttttttgctctttcagATTTTTGTAGATGAAGTGATGGAACTGGTTGAGATGGACAACCTCAAGGATGCCATAGTTGGGCTTCCAGGAATCACAGGTTTATCAACAGAACAGAGGA
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-----------agacatataacagatatgagaacaaacag--tgccaacaataacatcttttttgtttttacaagttttcaagctaacatgtaacatgtctcaatggttgcagCAATTTGTGGATGAAGTTATGGAACTAGTGGAGCTCGACAATCTGAGGGATGCCTTAGTTGGGCTACCAGGAATCACAGGGCTTTCGACAGAGCAAAGAA
upper sequence: Vv09s0002g03640.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA15G02220.1 (Glycine max), 3'ss of exon 16
gtaatgagttggaacttagaactagtatagcttcttctaaattgattatgaggtagtcattttgagtgctaaaagtttttttttttttttttttttttttgctctttcagATTTTTGTAGATGAAGTGATGGAACTGGTTGAGATGGACAACCTCAAGGATGCCATAGTTGGGCTTCCAGGAATCACAGGTTTATCAACAGAACAGAGGA
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-------gttagcactaagcatta-tatttacttttttattttgtccttgataaagtcacataaaagagtgaaacttacattccttattcttactcttca-------tagAAATTTGTTGACGAAGTAATGGACTTGGTTGAGCTAAACAATCTCAAGGATGCTATAGTTGGGCTTCCAGGTGTTACAGGGTTGTCAACCGAACAAAGAA
upper sequence: Vv09s0002g03640.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA07G01860.1 (Glycine max), 3'ss of exon 16
gtaatgagttggaacttagaactagtatagcttcttctaaattgattatgaggtagtcattttgagtgctaaaagtttttttttttttttttttttttttgctctttcagATTTTTGTAGATGAAGTGATGGAACTGGTTGAGATGGACAACCTCAAGGATGCCATAGTTGGGCTTCCAGGAATCACAGGTTTATCAACAGAACAGAGGA
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-------gtaagtactcagcactagtgtatcttttgattcttctcttaataaggattcata--gaaaggtgaa-----cttaaaatttcaattattttttatcttttcagCAATTTGTGGACCAAGTGATGGATTTGGTAGAGTTAGATAATCTCAAGGATGCTATAGTGGGGCTTCCAGGAGTTACAGGGTTGTCAACCGAACAAAGAA
upper sequence: Vv09s0002g03640.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA13G43140.1 (Glycine max), 3'ss of exon 15
gtaatgagttggaacttagaacta---gtatagcttcttctaaattgattatgaggtagtcattttgagtg--ctaaaagtttttttttttttttttttttttttgctcttt-cagATTTTTGTAGATGAAGTGATGGAACTGGTTGAGATGGACAACCTCAAGGATGCCATAGTTGGGCTTCCAGGAATCACAGGTTTATCAACAGAACAGAGGA
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-------gttagcactaagcattatgtgtttttttttttttaattttgtcctt-gataataaagttacataaaataaaagagtgaaacttaaattccttattcttactctttatagAAATTTGTTGACGAAGTAATGGAGTTGGTTGAGCTAAATAATCTCAAGGATGCTATAGTTGGGCTTCCAGGTGTTACAGGGTTGTCAACCGAACAAAGAA
upper sequence: Vv09s0002g03640.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: AT3G16340.1 (Arabidopsis thaliana), 3'ss of exon 13
gtaatgagttggaacttagaactagtatagcttcttctaaattgattatgaggtagtcattttgagtgctaaaagtttttttttttttttttttttttttgctctttcagATTTTTGTAGATGAAGTGATGGAACTGGTTGAGATGGACAACCTCAAGGATGCCATAGTTGGGCTTCCAGGAATCACAGGTTTATCAACAGAACAGAGGA
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---------------------gtaacacttcttcttgtaacttaac---------accattt---ataatagga---------tctcaatccatacaccaacttttgcagAGATTTGTGGATGAAGTGATGGAGCTAGTAGAGCTAGAGAGTCTAAAAGACGCGGTGGTGGGGCTTCCAGGTATCACAGGGTTATCAACAGAGCAGAGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtcattttgagtgctaaaagtttttttttttttttttttttttttgctctttcagATTTTTGTAGATGAAGTGATGGAACTGGTTGAGATGGACAACCTCAAGGATGCCATAGTTGGGCTTCCAGGAATCACAGGTTTATCAACAGAACAGAGGA
tgctaaa putative branch site (score: 2)
tttttttttttttttt putative PPT
taaaagtttttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatgagttggaacttagaactagtatagcttcttctaaattgattatgaggtagtcattttgagtgctaaaagtttttttttttttttttttttttttgctctttcagATTTTTGTAGATGAAGTGATGGAACTGGTTGAGATGGACAACCTCAAGGATGCCATAGTTGGGCTTCCAGGAATCACAGGTTTATCAACAGAACAGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA