Sequence
atgc intronic sequence ATGC exonic sequencegtatgtatttcagttttcatggactagattgtattatctgtgatagattggtgggtttcacttgtctgtatacatatttggttacagATCTTCAGCTTGATGTCAAAGGCTGTCGCGATGTTTATGCTTCATTTGACAAGTATGTTGAGGTTGAACGTCTCGAGGGTGATAATAAGTATCATGCTGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0073g00610.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os11g36470.1 (Oryza sativa), 3'ss of exon 3
gtatgtatttcagttttcatggacta---gattgtattatctgtgatagattggtgggtttcacttgtctgtatacatatttggttacagATCTTCAGCTTGATGTCAAAGGCTGTCGCGATGTTTATGCTTCATTTGACAAGTATGTTGAGGTTGAACGTCTCGAGGGTGATAATAAGTATCATGCTGA
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gtaggttttgtcctggtaccagattgtgggttcacattagatgtgtttcattatttattgtcaagttaatgctgtattatggccatgcagACCTTCAACTTGATGTTAAAGGTTGTCGTGATGTGTATGCATCGTTTGATAAATATGTTGAAGTTGAGCGCCTCGAAGGTGATAATAAGTATCATGCAGA
upper sequence: Vv13s0073g00610.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os12g30540.1 (Oryza sativa), 3'ss of exon 7
gtatgtatttcagttttcatggactagattgtattatctgtgatagattggtgggtttcacttgtctgtatacatatttggttacagATCTTCAGCTTGATGTCAAAGGCTGTCGCGATGTTTATGCTTCATTTGACAAGTATGTTGAGGTTGAACGTCTCGAGGGTGATAATAAGTATCATGCTGA
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----gtaagctttttcacattgaacattcagtatcatttttaat---ttagtg---cttactcatgt-------tataacattgcagATCTACAGCTTGATGTCAAAGGTTGTAGTGATGTTTATGCATCATTTGATAAATATGTCGAAGTGGAGCGTCTAGAGGGTGATAACAAATATCATGCAGA
upper sequence: Vv13s0073g00610.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os01g56490.1 (Oryza sativa), 3'ss of exon 7
----------gtatgtatttcagttttcatggactagattgtattatctgt--gatagattggtgggtttcacttgtctgtatacatatttggttacagATCTTCAGCTTGATGTCAAAGGCTGTCGCGATGTTTATGCTTCATTTGACAAGTATGTTGAGGTTGAACGTCTCGAGGGTGATAATAAGTATCATGCTGA
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gtaggtgacaaggtgaaatctggaccttgtttctttattgtttttatctattcatcatgattgtagatttatcatgtattttcgta-actcttttctagATCTTGCACTTGATGTCAAGGGCTGTTCAGATGTTTATGCATCATTTGATAAGTATGTTGAAGTAGAGAGATTGGAAGGTGATAATAAATACCAGTCTGA
upper sequence: Vv13s0073g00610.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G014805_T01 (Zea mays), 3'ss of exon 7
gtatgtatttcagttttcatggact----agattgtattatctgtgatagattggtgggtttcacttgtctgtatacatatttggttacagATCTTCAGCTTGATGTCAAAGGCTGTCGCGATGTTTATGCTTCATTTGACAAGTATGTTGAGGTTGAACGTCTCGAGGGTGATAATAAGTATCATGCTGA
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gtaggttctgtcatttaattgtacttgcaggaaaatcatatatttatatgatatataaataatagttgcctatgt-catgactgg---cagATCTACAACTTGATGTGAAAGGTTGTCGTGATGTTTATGCATCATTTGATAAGTATGTGGAAGTGGAGAGTCTAGAGGGTGATAACAAGTACCATGCGGA
upper sequence: Vv13s0073g00610.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA10G23680.1 (Glycine max), 3'ss of exon 3
gtatgtatttcagttttcatggactagattgtattatctgtgatagattggtgggtttcacttgtctgtatacatatttggttacagATCTTCAGCTTGATGTCAAAGGCTGTCGCGATGTTTATGCTTCATTTGACAAGTATGTTGAGGTTGAACGTCTCGAGGGTGATAATAAGTATCATGCTGA
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gtatgcatttttgccttta-ggatt-gtttactacat-tattgcatatct-tgaacctta-tagaatat-tggatattttattatagATCTTCAGCTTGATGTCAAAGGCTGTAAGGACGTATATGCTTCTTTTGATAAGTATGTGGAAGTGGAACAACTTGAGGGTGATAACAAGTATCATGCTGA
upper sequence: Vv13s0073g00610.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: EFJ19227 (Selaginella moellendorffii), 3'ss of exon 7
gtatgtatttcagttttcatggactagattgtattatctgtgatagattggtgggtttcacttgtctgtatacatatttggttacagATCTTCAGCTTGATGTCAAAGGCTGTCGCGATGTTTATGCTTCATTTGACAAGTATGTTGAGGTTGAACGTCTCGAGGGTGATAATAAGTATCATGCTGA
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-----------------------------------gtatgttg-atattgagtagtctgggcttctcaca-acgtgt---gttacagATTTGCAATTGGATGTCAAGGGCTGCAAGGACGTGTATGCGTCATTTGACAAGTATGTGGAGGTTGAGAAACTTGAGGGGGATAATAAGTACCATGCCGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attatctgtgatagattggtgggtttcacttgtctgtatacatatttggttacagATCTTCAGCTTGATGTCAAAGGCTGTCGCGATGTTTATGCTTCATTTGACAAGTATGTTGAGGTTGAACGTCTCGAGGGTGATAATAAGTATCATGCTGA
tatacatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtatttcagttttcatggactagattgtattatctgtgatagattggtgggtttcacttgtctgtatacatatttggttacagATCTTCAGCTTGATGTCAAAGGCTGTCGCGATGTTTATGCTTCATTTGACAAGTATGTTGAGGTTGAACGTCTCGAGGGTGATAATAAGTATCATGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG