Sequence
atgc intronic sequence ATGC exonic sequence...gccacatatcggcttttgattgaagaactctctaattattagtgacttttgagttttccttttcacttttcataattcttttgggattattttgattcagTGCAAGGAGAGGAAGGATTTATTTACCACAGGATGAGCTGGCACAAGCAGGGCTCTCAGATGAGGACATTTTTATGGGAAGGGTAACAGATAAATGGAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0079g00680.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os06g51290.3 (Oryza sativa), 3'ss of exon 4
-------gccacatatcggcttttgattgaagaactctctaattattagtgacttttgagttttcctt--ttcacttttcataattcttttgggattattttgattcagTGCAAGGAGAGGAAGGATTTATTTACCACAGGATGAGCTGGCACAAGCAGGGCTCTCAGATGAGGACATTTTTATGGGAAGGGTAACAGATAAATGGAGA
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gtaagtgtcaatacagtggttttc-actaatggtcataagctgtagaacagaatgtcggcatatatatagttcactgatcctaatacttc--attttattttca--cagCGCGAGAAGAGGGAGGATATATTTACCACAAGATGAACTTGCAGAGGCAGGGCTCTCTGATGAGGACATCTTCAATGGCGTTGTGACTAACAAATGGAGA
upper sequence: Vv04s0079g00680.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G300348_T03 (Zea mays), 3'ss of exon 4
gccacatatcggcttttgattgaagaactctctaattattagtgacttttgagttttccttttcact--tttcataattcttttgggattattttgattcagTGCAAGGAGAGGAAGGATTTATTTACCACAGGATGAGCTGGCACAAGCAGGGCTCTCAGATGAGGACATTTTTATGGGAAGGGTAACAGATAAATGGAGA---------
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-------gtaagtaacatatatattcttcctgcgacaggcacgaacatgcatgtgttcaatagcacagatgtgatgatatgactgtcaccatgtct-tttagtgctagaagAGGAAGGATATATTTACCACAAGATGAGCTTGCACAGGCAGGGCTCTCTGATGAGGACATCTTCAAAGGGGTCGTCACGAACCGGTGGAGAAACTTCATG
upper sequence: Vv04s0079g00680.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G300348_T01 (Zea mays), 3'ss of exon 1
gccacatatcggcttttgattgaagaactctctaattattagtgacttttgagttttccttttcact--tttcataattcttttgggattattttgattcagTGCAAGGAGAGGAAGGATTTATTTACCACAGGATGAGCTGGCACAAGCAGGGCTCTCAGATGAGGACATTTTTATGGGAAGGGTAACAGATAAATGGAGA
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-------gtaagtaacatatatattcttcctgcgacaggcacgaacatgcatgtgttcaatagcacagatgtgatgatatgactgtcaccatgtct-tttagTGCTAGAAGAGGAAGGATATATTTACCACAAGATGAGCTTGCACAGGCAGGGCTCTCTGATGAGGACATCTTCAAAGGGGTCGTCACGAACCGGTGGAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttttgagttttccttttcacttttcataattcttttgggattattttgattcagTGCAAGGAGAGGAAGGATTTATTTACCACAGGATGAGCTGGCACAAGCAGGGCTCTCAGATGAGGACATTTTTATGGGAAGGGTAACAGATAAATGGAGA
ttttgat putative branch site (score: 4)
ttatttt CT-rich tract
ttttcataattctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gccacatatcggcttttgattgaagaactctctaattattagtgacttttgagttttccttttcacttttcataattcttttgggattattttgattcagTGCAAGGAGAGGAAGGATTTATTTACCACAGGATGAGCTGGCACAAGCAGGGCTCTCAGATGAGGACATTTTTATGGGAAGGGTAACAGATAAATGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
-ccacata
- - - - - - - - - - -gaagaac