Sequence
atgc intronic sequence ATGC exonic sequence...aatgaaaacaaatgaaaatctgcacccccacccctcatttattttcgatctgtatcagcttcttttacgtgtattgaagcttaaatgtctctgtgcatagAACATTCAAGGATTCATGTGGGACGAAGAGAAAGTGAACCACGAACTTCAGAAGTATATGAGGAGATCCTTCCTGGACGTAAAGGCAATGTGTCAAACTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0204g00160.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os04g45970.1 (Oryza sativa), 3'ss of exon 8
--aatgaaaacaaatgaaaatctgcacccccacccctcatttattttcgatctgtatcagcttcttttacgtgtattgaagcttaaatgtctctgtgcatagAACATTCAAGGATTCATGTGGGACGAAGAGAAAGTGAACCACGAACTTCAGAAGTATATGAGGAGATCCTTCCTGGACGTAAAGGCAATGTGTCAAACTC
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gtaattgaaatg--ccggttcctacgatcttgtttcgcattagctttggatgaata-cagcatctcccttatgcgct-----ttgaacggtt------gcagAACATTCAAGGGTTCATGTGGGATGAGGAGAAGGTGAACATGGAGCTCCACAAGTACATGAACAATTCTTTCCAGCACATCAAGGCCATGTGTAAATCTC
upper sequence: Vv00s0204g00160.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os02g43470.1 (Oryza sativa), 3'ss of exon 8
aatgaaaacaaatgaaaatctgcacccccacccctcatttattttcgatctgtatcagcttcttttacgtgtattgaagcttaaatgtctctgtgcatagAACATTCAAGGATTCATGTGGGACGAAGAGAAAGTGAACCACGAACTTCAGAAGTATATGAGGAGATCCTTCCTGGACGTAAAGGCAATGTGTCAAACTC
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-gtaatagaacagaagattttgtgccttc----tttggatctttcccatgaatctaa-------tggcatatgtttgtgct---acgcctatg-gtgcagAACATTCAGGGCTTCATGTGGGATGAAGAGAAGGTGAACAGGGAGCTCCAAAAGTACATGAAGAACGCTTTTCAGAACATCAAGGACATGTGCAAATCCC
upper sequence: Vv00s0204g00160.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G427097_T01 (Zea mays), 3'ss of exon 8
aatgaaaacaaatgaaaatctgcacccccacccctcatttattttcgatctgtatcagcttcttttacgtgtattgaagcttaaatgtctctgtgcatagAACATTCAAGGATTCATGTGGGACGAAGAGAAAGTGAACCACGAACTTCAGAAGTATATGAGGAGATCCTTCCTGGACGTAAAGGCAATGTGTCAAACTC
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-----------gtaaatgcctgttcgtcgctgcttcattg---ctcgattggttccttgctctaatctgctttcttgtgccatgttgattgatggtgcagAACATTCAAGGTTTCATGTGGGATGAGGAGAAAGTTAACGATGAACTAGAAAAGTACATGAGCAGTGCTTTTCAACACATGAAAGCCATGTGCAAATCTC
upper sequence: Vv00s0204g00160.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA17G15740.1 (Glycine max), 3'ss of exon 9
aatgaaaacaaatgaaaatctgcacccccacccctcatttattttcga--tctgtatcagcttcttttacgtgtattgaagcttaaatgtctctgtgc-----atagAACATTCAAGGATTCATGTGGGACGAAGAGAAAGTGAACCACGAACTTCAGAAGTATATGAGGAGATCCTTCCTGGACGTAAAGGCAATGTGTCAAACTC
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-------gtaaatggaa-tcaacataaacactcaaagcctattttgaaaatcttccttaagtctctcttttaat-ttaaatctcctttggttctatgctgcttgtagAATATTCAAGGTTTCATGTGGGATGAAGAGAAAGTGAACCGTGAGCTGAAGAAGTACATGACCAAAGCTTTCCAGGATATCAAGGCAATGTGTAAAATTC
upper sequence: Vv00s0204g00160.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA05G05460.1 (Glycine max), 3'ss of exon 8
aatgaaaacaaatgaaaatctgcacccccacccctcatttattttcgatctgtatcagct-tcttttacgtg-tattgaagcttaaatgtctctgtgca-----tagAACATTCAAGGATTCATGTGGGACGAAGAGAAAGTGAACCACGAACTTCAGAAGTATATGAGGAGATCCTTCCTGGACGTAAAGGCAATGTGTCAAACTC
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-------gtaaatgaaa-tcaacataaacactcaaagccaatcttgaaaatcttcctgctgtctctttcttaatgttaaatctcatttggctctatgctgccttcagAATATTCAAGGTTTCATGTGGGAGGAAGAAAAAGTAAACCATGAGCTGAAGAAGTACATGACCAGATCTTTCCGGGATATCAAGGCAATGTGTAAAATTC
upper sequence: Vv00s0204g00160.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA01G41310.1 (Glycine max), 3'ss of exon 8
aatgaaaacaaatgaaaatctgcacccccacccctcatttattttcgatctgtatcagctt-cttttacgtgta-ttgaagcttaaatgtctctgtgc-atagAACATTCAAGGATTCATGTGGGACGAAGAGAAAGTGAACCACGAACTTCAGAAGTATATGAGGAGATCCTTCCTGGACGTAAAGGCAATGTGTCAAACTC
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---------------------gtaatgggatcaataaaacactcaaaattctcaaaggctcacttgaaagcaaagttttcattttgaaatctctgtgttgcagAATATTCAGGGATTTATGTGGGATGAAGAGAAAGTGAACCGTGAGCTGAAAAAGTATATGACTAAAGCCTTCCGCAACATAAAGGCAATGTGTCAAATTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cgatctgtatcagcttcttttacgtgtattgaagcttaaatgtctctgtgcatagAACATTCAAGGATTCATGTGGGACGAAGAGAAAGTGAACCACGAACTTCAGAAGTATATGAGGAGATCCTTCCTGGACGTAAAGGCAATGTGTCAAACTC
tgtctct CT-rich tract
ttctttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatgaaaacaaatgaaaatctgcacccccacccctcatttattttcgatctgtatcagcttcttttacgtgtattgaagcttaaatgtctctgtgcatagAACATTCAAGGATTCATGTGGGACGAAGAGAAAGTGAACCACGAACTTCAGAAGTATATGAGGAGATCCTTCCTGGACGTAAAGGCAATGTGTCAAACTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - -aaacaaa
- - - - - - -gaaaatc
- - - - - - - - - - - - - cccaccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgaagct