Sequence
atgc intronic sequence ATGC exonic sequencegtgagttttagtattacgccaatcttttatttattcttgatgagcaattcttatggtttggaatctttttatattgggctattggcttatatatccgattctctttccagATTGGATATCTCGAATACTGTAAGAAGCGGGGTTTCACAAGTTGCTATATATGGGCTTGTCCTCCTTTGAAGGGTGAAGACTATATATTGTATTGCCATC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os06g49130.2 (Oryza sativa), 3'ss of exon 9
-----------------gtgagttttagt-attacgccaatcttttatttattcttgatgagcaa------ttctta---------tggtttggaatctttttatattggg-----ctattggcttatatatccgattctctt-----tccagATTGGATATCTCGAATACTGTAAGAAGCGGGGTTTCACAAGTTGCTATATATGGGCTTGTCCTCCTTTGAAGGGTGAAGACTATATATTGTATTGCCATC
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gtaattcgctatgcctattgagttctcttcaatactttcttgtttagatttgtcaagaagaggggaatagtttcctaatcaatcactcgactaataatttctcgttttgataatttcttttgtctctaatactagttttttttctggatacagATAGGTTATCTTGAGTACTATAAGCAGCGTGGATTCACCAGTTGTTATATATGGGCTTGCCCTCCTGTTAAAGGTGAAGATTACATTTTGTATTGCCATC
upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G139977_T01 (Zea mays), 3'ss of exon 9
----------------------------------gtg-agttttagtattacgccaatcttttatttattcttgatgagcaattcttatggtttggaa----tctttttatattgggctattggcttatatatccgattctctttc----cagATTGGATATCTCGAATACTGTAAGAAGCGGGGTTTCACAAGTTGCTATATATGGGCTTGTCCTCCTTTGAAGGGTGAAGACTATATATTGTATTGCCATC
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gtaatttgccatccatgctgactttttgtgactaatacaaatttattgccttaccagg-tttggccaaaactgtttggggggaccatatgactggaaactgttttttttagctaggatttgttcttggtctaatctgttctcattgtgtacagATAGGATATCTTGAATACTGTAAACTGCGGGGATTCACAAGTTGTTACATATGGGCTTGTCCACCTTTGAAGGGTGAAGATTACATCTTATATTGCCATC
upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G470556_T01 (Zea mays), 3'ss of exon 9
----------------------------------gtg-agttttagtattacgccaatcttttatttattcttgatgagcaattcttatggtttggaatctttttatattgggctattggcttatat---------atccgattctctttc--------cagATTGGATATCTCGAATACTGTAAGAAGCGGGGTTTCACAAGTTGCTATATATGGGCTTGTCCTCCTTTGAAGGGTGAAGACTATATATTGTATTGCCATC
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gtaatttaccatccatgctgactttttgttgctagtacaaatttattgccttaccaggttttgatcaaaactgtctacgagac-catacaacaggaaaccttttttcttcttctttttagctagcatttgttctgggtctaatctgccctcaccgtgtacagATAGGATATCTTGAATACTGTAAGCTGCGGGGGTTCACAAGTTGTTACATATGGGCTTGCCCACCTTTGAAGGGTGAAGATTACATCTTATATTGCCATC
upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA07G00230.1 (Glycine max), 3'ss of exon 10
gtgagttttagtattacgccaatcttttatttattcttgatgagcaattcttatggtttggaatctttttatattg-ggctattggcttatatatccgattctctttccagATTGGATATCTCGAATACTGTAAGAAGCGGGGTTTCACAAGTTGCTATATATGGGCTTGTCCTCCTTTGAAGGGTGAAGACTATATATTGTATTGCCATC
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gtaaatttggacactaagatcttgctttgga-gcccttccttagagatattctagttctgggttactatcttcctgtaaattatatttgatatgaattatt-tctttttagATTGGATATCTTGAATATTGCAAGAAACGTGGTTTTACAAGCTGCTATATCTGGGCTTGTCCTCCATTAAAGGGGGAAGATTATATTTTATATTGCCATC
upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA15G00250.1 (Glycine max), 3'ss of exon 10
-------------------------------gtgagttttagtattacgccaatcttttatttattcttgatg-agcaattc---ttatggtttggaatctttttata---ttgggctat-----tggcttat--atatccgat----tctctttccagATTGGATATCTCGAATACTGTAAGAAGCGGGGTTTCACAAGTTGCTATATATGGGCTTGTCCTCCTTTGAAGGGTGAAGACTATATATTGTATTGCCATC
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gtaacctttagttctaattccttgtccttgtgttgggtggaatattatac-agccttgtggaaccctttgttggagtcattcaagttctgatttgtttccttcctgtagttctattctatataaatagttgagtagttttcgttatgattttcttttagATTGGATACCTTGAGTATTGCAAGAAACGTGGTTTTACAAGCTGCTACATATGGGCATGTCCTCCATTAAAGGGTGAAGATTATATTTTATATTGTCATC
upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT1G55970.1 (Arabidopsis thaliana), 3'ss of exon 9
gtgagttttagtattacgccaatcttttatttattcttgatgagcaattcttatggtttggaatctttttatattgggctattggcttatatatccgattctctttccagATTGGATATCTCGAATACTGTAAGAAGCGGGGTTTCACAAGTTGCTATATATGGGCTTGTCCTCCTTTGAAGGGTGAAGACTATATATTGTATTGCCATC
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-----------------gtaagccgttt---tatctctaatcccatcttctttaggtttcgtgttttgcttcacgagtacatgaaacttatcattgttacgaatttgcagATTGGTTATCTCGATTATTGTAAGAAACGTGGTTTTACAAGCTGCTATATATGGGCATGTCCTCCACTTAAGGGTGACGATTACATTCTTTACTGTCATC
upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT1G16710.1 (Arabidopsis thaliana), 3'ss of exon 10
gtgagttttagtattacgccaatcttttatttattcttgatgagcaattcttatggtttggaatctttttatattgggctattggcttatatatccgattctctttccagATTGGATATCTCGAATACTGTAAGAAGCGGGGTTTCACAAGTTGCTATATATGGGCTTGTCCTCCTTTGAAGGGTGAAGACTATATATTGTATTGCCATC
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------------------gtaagttctggttt-ttcaacctagg---tttatgtggtcttcta-cattacatggatgattcaagggtattataccctgatgctttttcagATTGGTTATCTGGAATACTGCAAATTGCGTGGTTTCACGAGCTGCTACATATGGGCTTGTCCACCACTGAAGGGTGAGGATTATATCCTATATTGCCATC
upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT3G12980.1 (Arabidopsis thaliana), 3'ss of exon 10
gtgagttttagtattacgccaatcttttatttattcttgatgagcaattcttatggtttggaatctttttatattgggctattggcttatatatccgattctctttccagATTGGATATCTCGAATACTGTAAGAAGCGGGGTTTCACAAGTTGCTATATATGGGCTTGTCCTCCTTTGAAGGGTGAAGACTATATATTGTATTGCCATC
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-------------gtaagccgcatttcttctgatcctagttg-----ctttcaggcacctgtgttgcttcacaa-gtcttatcaaca---atgggcttttcggattgcagATTGGTTACCTTGACTACTGTAAGAAACGTGGATTTTCAAGCTGCTATATATGGGCATGCCCCCCTCTTAAGGGTGAAGATTATATTTTATATTGCCATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttggaatctttttatattgggctattggcttatatatccgattctctttccagATTGGATATCTCGAATACTGTAAGAAGCGGGGTTTCACAAGTTGCTATATATGGGCTTGTCCTCCTTTGAAGGGTGAAGACTATATATTGTATTGCCATC
tccgattctctttcc CT-rich tract
aatctttttatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagttttagtattacgccaatcttttatttattcttgatgagcaattcttatggtttggaatctttttatattgggctattggcttatatatccgattctctttccagATTGGATATCTCGAATACTGTAAGAAGCGGGGTTTCACAAGTTGCTATATATGGGCTTGTCCTCCTTTGAAGGGTGAAGACTATATATTGTATTGCCATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA