Sequence
atgc intronic sequence ATGC exonic sequence...ttgaaacagtggccataataagtccctattttcctagtgcctgaaagtgaagctccattctgaagttttctgaactataagatacatttttgacttccagGTGCAATTGATCGACAATTTCACCAACAAGAAAGGAATGACCAGTCAATGTTATCGGATAGCATACCGGTCCATGGAGCGTTCACTTACAGATGAGGAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0027g01480.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os12g34860.1 (Oryza sativa), 3'ss of exon 8
--ttgaaacagtggccataataagtccctattttcctagtgc-ctgaaagtgaagctccattctgaagttttctgaactataagatacatttttgacttccagGTGCAATTGATCGACAATTTCACCAACAAGAAAGGAATGACCAGTCAATGTTATCGGATAGCATACCGGTCCATGGAGCGTTCACTTACAGATGAGGAGA
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gtgcctaactttgtgcgtctaacattaccagtatgatgatacactggaatttattgtgctcgtcataattttatcaggctaaag---tgttgttcgtttgcagGTAAAACTAATTGACAATTTCACCAACAAGAAAGGAATGACGAGCCATTGCTACAGGATAGCCTATAGGTCAATGGAACGTTCACTTACCGATGAGGAGA
upper sequence: Vv19s0027g01480.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G078756_T01 (Zea mays), 3'ss of exon 8
--ttgaaacagtggccataat---aagtccctattttcctagtgcc-tgaaagtgaagctccattctgaagttttctgaactataagatacatttttgacttccagGTGCAATTGATCGACAATTTCACCAACAAGAAAGGAATGACCAGTCAATGTTATCGGATAGCATACCGGTCCATGGAGCGTTCACTTACAGATGAGGAGA
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agcctagtttgtgcatccaatctaaaatctgtagtttggtcatataatggaatttaaaagctattcagagtatgtttgagac------tgacttttttgtttgcagGTAAAACTTATTGATAATTTCACCAACAAGAAAGGCATGACAAGTCATTGCTACAGAATAGCATATAGGTCAATGGAACGTTCGCTCACAGACGAGGAGA
upper sequence: Vv19s0027g01480.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA18G52890.1 (Glycine max), 3'ss of exon 10
--ttgaaacagtggccataataagtccctattttcctagtgcctgaaagtgaagctccattctgaagttttctgaactataagatacatttttga-cttccagGTGCAATTGATCGACAATTTCACCAACAAGAAAGGAATGACCAGTCAATGTTATCGGATAGCATACCGGTCCATGGAGCGTTCACTTACAGATGAGGAGA
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gtttttaacag-gattatgaca--tcctttcccccttttttcatgagtgctacattaagtttgatccctttttctgtttttgtttggcttctcgaatttgcagGTGCAATTAATAGACAATTTCACCAACAAGAAAGGAATGACCAGCCACTGCTATAGGATTGCATATAGGTCTATGGAACGTTCACTCACTGATGAGGAAA
upper sequence: Vv19s0027g01480.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G10060.1 (Glycine max), 3'ss of exon 8
--ttgaaacagtggccataataagtccctattttcctagtgcctgaaagtgaagctccattctgaagttttctgaactataagatacatttttgacttccagGTGCAATTGATCGACAATTTCACCAACAAGAAAGGAATGACCAGTCAATGTTATCGGATAGCATACCGGTCCATGGAGCGTTCACTTACAGATGAGGAGA
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catttagtttttaataggattatttccccctttttttaatgagtgctacattaagtttgttccct--tttgtctgtttttgttttgcttcttgaaattgcagGTGCAATTAATAGACAACTTCACCAACAAGAAAGGAATGACCAGCCACTGCTATAGGATTGCATATAGGTCTATGGAACGTTCTCTCACTGATGAGGAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtgaagctccattctgaagttttctgaactataagatacatttttgacttccagGTGCAATTGATCGACAATTTCACCAACAAGAAAGGAATGACCAGTCAATGTTATCGGATAGCATACCGGTCCATGGAGCGTTCACTTACAGATGAGGAGA
ttttgac putative branch site (score: 3)
cattttt CT-rich tract
tataagatacattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgaaacagtggccataataagtccctattttcctagtgcctgaaagtgaagctccattctgaagttttctgaactataagatacatttttgacttccagGTGCAATTGATCGACAATTTCACCAACAAGAAAGGAATGACCAGTCAATGTTATCGGATAGCATACCGGTCCATGGAGCGTTCACTTACAGATGAGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- gaaacag
- - - - - - - - - - - - - - - - - - -tgcctga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -agataca