Sequence
atgc intronic sequence ATGC exonic sequence...tgttactggtatcttgaaaaggaggaatggaaacaagggcctgtgacttcattggaaaagagcctgattattgaaatcttcctttctttgatgatttcagGTTTTCCAGTTGCAAGTGAATAATGGGATTCCTATTAAGAGTTGGTTTGATGATCCGTCAGACCATGCACTAATTTCACTACTTCCCTTCCTAGAGACCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g02690.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os01g43870.2 (Oryza sativa), 3'ss of exon 6
tgttactggtatcttgaaaaggaggaatggaaacaagggcctgtgacttcattggaaaagagcctgattattgaaatcttcctttctttgatgatttcagGTTTTCCAGTTGCAAGTGAATAATGGGATTCCTATTAAGAGTTGGTTTGATGATCCGTCAGACCATGCACTAATTTCACTACTTCCCTTCCTAGAGACCC---------
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--acacagatatgcttattatttctta-gctgcctatttcttgtcgatgtatgttttccaaagttg--taagtaaatcttcatctttttt----tttcaggttttccagTTGCAAGTGGACAATGGTATACCAATAAAGAGCTGGTTTGATGACCCCTCAGACCAGGAATTGGTCGAGTTACTCCCATTCCTGGAGACACTTGTTGGTG
upper sequence: Vv10s0003g02690.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os01g43870.1 (Oryza sativa), 3'ss of exon 6
tgttactg-gtatcttgaaaaggaggaatggaaacaagggcctgtgacttcattggaaaagagcctgattattg-aaatcttcctttctttgatgatttcagGTTTTCCAGTTGCAAGTGAATAATGGGATTCCTATTAAGAGTTGGTTTGATGATCCGTCAGACCATGCACTAATTTCACTACTTCCCTTCCTAGAGACCC
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--gtactatgtacacagatatgcttattatttcttagctgcctatttcttgtcgatgtatgttttccaaagttgtaagtaaatcttcatctttttttttcagGTTTTCCAGTTGCAAGTGGACAATGGTATACCAATAAAGAGCTGGTTTGATGACCCCTCAGACCAGGAATTGGTCGAGTTACTCCCATTCCTGGAGACAC
upper sequence: Vv10s0003g02690.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os01g47540.2 (Oryza sativa), 3'ss of exon 6
---------------------------------------------------------------------------------------tgtt----actggtatcttgaaaaggaggaatggaaacaagggcctgtgacttcattggaaaagagcctgattattgaaatcttcctttctttgatgatttcagGTTTTCCAGTTGCAAGTGAATAATGGGATTCCTATTAAGAGTTGGTTTGATGATCCGTCAGACCATGCACTAATTTCACTACTTCCCTTCCTAGAGACCC---------
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gtaaactgctgataacttgttctgcgctaatgcacttcgtgttctaaatgttgtcacttatgtttttaagaaggttcagtgttaaagtgtcctggacctacatctctgaatttttgaaatctcccattcatcaactatcgcat-gaagtatccgatgagcacctgaatactaatttccatgtttcattcaggttttccagTTGCAAGTGAATAATGGTATACCCATAGAGAGTTGGTTTAGCGACGACTCTGATGAGGCATTACCTCAGCTGATTCCGTTCCTGGAGACCCTTGCTTCTG
upper sequence: Vv10s0003g02690.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os01g47540.1 (Oryza sativa), 3'ss of exon 6
---------------------------------------------------------------------------------------tgtt----actggtatcttgaaaaggaggaatggaaacaagggcctgtgacttcattggaaaagagcctgattattgaaatcttcctttctttgatgatttcagGTTTTCCAGTTGCAAGTGAATAATGGGATTCCTATTAAGAGTTGGTTTGATGATCCGTCAGACCATGCACTAATTTCACTACTTCCCTTCCTAGAGACCC
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gtaaactgctgataacttgttctgcgctaatgcacttcgtgttctaaatgttgtcacttatgtttttaagaaggttcagtgttaaagtgtcctggacctacatctctgaatttttgaaatctcccattcatcaactatcgcat-gaagtatccgatgagcacctgaatactaatttccatgtttcattcagGTTTTCCAGTTGCAAGTGAATAATGGTATACCCATAGAGAGTTGGTTTAGCGACGACTCTGATGAGGCATTACCTCAGCTGATTCCGTTCCTGGAGACCC
upper sequence: Vv10s0003g02690.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G162347_T02 (Zea mays), 3'ss of exon 6
------tgttactggtatcttgaaaaggaggaatggaaacaagggcctgtgacttcattggaaaagagcctgattattgaaatcttcctttctttgatgatttcagGTTTTCCAGTTGCAAGTGAATAATGGGATTCCTATTAAGAGTTGGTTTGATGATCCGTCAGACCATGCACTAATTTCACTACTTCCCTTCCTAGAGACCC
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agtaccttttcatcgtagccttttttgccatctta-aattatttacatactatatatattcattattttttgttaattagttgaagcatttcttta-----tctagGTTTTCCAGTTGCAAGTGGATAACGGCATACCGATTAAGAGCTGGTTTGATGACCCCTCAGATCAGGAACTGATCGAGTTGCTCCCGTTCTTGGAGAGCC
upper sequence: Vv10s0003g02690.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G068690_T03 (Zea mays), 3'ss of exon 6
--------tgttactg--gtatcttgaaaaggaggaatggaaaca-agggcctgtgacttcattggaaaagagcctgattattgaaatcttcctttctttgatgatttcagGTTTTCCAGTTGCAAGTGAATAATGGGATTCCTATTAAGAGTTGGTTTGATGATCCGTCAGACCATGCACTAATTTCACTACTTCCCTTCCTAGAGACCC
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aactatcttttcatcagagcctttttgctatatgaaatatttacatactatatatgtattcattattttttg--ttaattaatgaag----catttctttg-----tccagGTTTTCCAGTTGCAAGTGGATAACGGCATACCAATTAAGAGCTGGTTTGATGACCCCGCAGACCAGGAATTAATCGAGTTACTCCCGTTCCTGGAGAGCC
upper sequence: Vv10s0003g02690.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA15G23380.2 (Glycine max), 3'ss of exon 6
tgttactggtatcttgaaaaggaggaatggaaacaagggcctgtgacttcattggaaaagagcctgattattgaaatcttcctttctttgatg-atttcagGTTTTCCAGTTGCAAGTGAATAATGGGATTCCTATTAAGAGTTGGTTTGATGATCCGTCAGACCATGCACTAATTTCACTACTTCCCTTCCTAGAGACCC
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aatggccactgtctggccctggatggaggaggggagaaaatattttcttcattg-aatattttttgatgtttaatcctttcactctgataatacatttcagGTTTTCCGATTGCAAGTGAATAATGGTATTCCTATAAAGAGTTGGTTTGATGATCCATTAGATTGTGCACTGATGTCATTACTTCCCTTTCTAGAGACCT
upper sequence: Vv10s0003g02690.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA09G11580.1 (Glycine max), 3'ss of exon 2
-----tgttactggtatcttgaaaaggaggaatggaaacaagggcctgtgacttcattggaaaagagcctgattattgaaatcttcctttctttgatg-atttcagGTTTTCCAGTTGCAAGTGAATAATGGGATTCCTATTAAGAGTTGGTTTGATGATCCGTCAGACCATGCACTAATTTCACTACTTCCCTTCCTAGAGACCC
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ttaaaggccactctggccctggatggg-ggagttgagaaaatgtttt----cttcattg-aatattttttgatgtttaatcctttcactctaataatacatttcagGTTTTCCGATTGCAAGTGAATAATGGTATTCCTATAAAGAGTTGGTTTGATGATCCATTAGATTGTGCACTGATGTCATTACTTCCCTTTCTAGAGACCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttcattggaaaagagcctgattattgaaatcttcctttctttgatgatttcagGTTTTCCAGTTGCAAGTGAATAATGGGATTCCTATTAAGAGTTGGTTTGATGATCCGTCAGACCATGCACTAATTTCACTACTTCCCTTCCTAGAGACCC
tcttcctttctttgat CT-rich tract
attattgaaatctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgttactggtatcttgaaaaggaggaatggaaacaagggcctgtgacttcattggaaaagagcctgattattgaaatcttcctttctttgatgatttcagGTTTTCCAGTTGCAAGTGAATAATGGGATTCCTATTAAGAGTTGGTTTGATGATCCGTCAGACCATGCACTAATTTCACTACTTCCCTTCCTAGAGACCC
- ttactgg
- - - - - - - - aaaagga
- - - - - - - - - - - - - - ggaaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - -ggaaaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agcctga