Sequence
atgc intronic sequence ATGC exonic sequencegtaagatacttatatcagcaatttgtgaaatttttgaaaatatgcgtgtgaaatttttgaaagtatgcgagtttattggaaaaatatgtgagtttattggaagtgcccactcattgatgtttaaacttgacattgtagTTATGGAGATGGAGAGCCAACTGATAATGCTGCTAGATTTTACAAATGGTTTACTGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g07630.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA04G10200.1 (Glycine max), 3'ss of exon 3
gtaagatacttatatcagcaatttgtgaaatttttgaaaatatgcgtgtgaaatttttgaaagtatgcgagtttattggaaaaatatgtgagtttattggaa---gtgcccactcattgatgtttaaacttgacattgtagTTATGGAGATGGAGAGCCAACTGATAATGCTGCTAGATTTTACAAATGGTTTACTGAG
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----------------------------------------------------------gtaag-atttatgtacat---aaaaatgcatttatttattgaaatgtgtggtgaatatgatgcattttgatttgacttaacagTTATGGAGATGGAGAGCCAACTGATAATGCTGCAAGATTCTACAAATGGTTTACTGAG
upper sequence: Vv18s0001g07630.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA06G10180.1 (Glycine max), 3'ss of exon 3
gtaagatacttatatcagcaatttgtgaaatttttgaaaatatgcgtgtgaaatttttgaaagtatgcgagtttattggaaaaatatgtgagtttattggaagtgcccactcattgatgtttaaacttgacattgtagTTATGGAGATGGAGAGCCAACTGATAATGCTGCTAGATTTTACAAATGGTTTACTGAG
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------------------------gtaagatttatgtacata-------aaaatggttgaaa-tgcatttatttattg---aaatgtgtgg------tgaatgtg---attcatt------ttgatttgacatgacagTTATGGAGATGGAGAGCCAACTGATAATGCTGCAAGATTCTACAAATGGTTTACTGAG
upper sequence: Vv18s0001g07630.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA14G36070.1 (Glycine max), 3'ss of exon 3
gtaagatacttatatcagcaatttgtgaaatttttgaaaat---atgcgtgtgaaatttttgaaagtatgcgagtttattggaaaaatatgtgagtttattggaagtgcccactcattgatg--tttaaacttgacattgtagTTATGGAGATGGAGAGCCAACTGATAATGCTGCTAGATTTTACAAATGGTTTACTGAG
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------------------------gtaagaattatgcacatgaaaagtggttgaaaactt--gaagttcatta--ttattattatgttattgttgttattttgaaatctgttgtatttgatgcatttggacctgacatggcagATATGGAGATGGAGAGCCAACTGACAATGCTGCAAGATTCTACAAATGGTTTACTGAG
upper sequence: Vv18s0001g07630.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G37850.1 (Glycine max), 3'ss of exon 3
gtaagatacttatatcagcaatttgtgaaatttttgaaaatatgcgtgtgaaatttttgaaagtatgcgagtttattggaaaaatatgtgagtttattggaagtgcccactcattgatgtttaaacttgacattgtagTTATGGAGATGGAGAGCCAACTGATAATGCTGCTAGATTTTACAAATGGTTTACTGAG
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-----------------------------------ccaggggcatttagggaattaaaaacaattgctgggtgcacaagcaata-atgctggtgcacctagcatcacccttgat--gcatttggacctgacatggtagATATGGAGATGGAAAGCCAACTGACAATGCTGCAAGATTTCACAAATGGTTTACTGAG
upper sequence: Vv18s0001g07630.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: EFJ14342 (Selaginella moellendorffii), 3'ss of exon 3
gtaagatacttatatcagcaatttgtgaaatttttgaaaatatgcgtgtgaaatttttgaaagtatgcgagtttattggaaaaatatgtgagtttattggaagtgcccactcattgatgtttaaacttgacattgtagTTATGGAGATGGAGAGCCAACTGATAATGCTGCTAGATTTTACAAATGGTTTACTGAG
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---------------------------------------------------------------------------gtaagttcttccccgaatttgccaggtgttcttacttgttgatg-----------cattttagATACGGCGATGGAGAACCGACGGATAATGCTGCTCGCTTTTACAAATGGTTTGTCGAG
upper sequence: Vv18s0001g07630.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: EFJ20231 (Selaginella moellendorffii), 3'ss of exon 3
gtaagatacttatatcagcaatttgtgaaatttttgaaaatatgcgtgtgaaatttttgaaagtatgcgagtttattggaaaaatatgtgagtttattg--gaagtgcccactcattgatgtttaaacttgacattgtagTTATGGAGATGGAGAGCCAACTGATAATGCTGCTAGATTTTACAAATGGTTTACTGAG
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---------------------------------------------------------------------------------------gtaagttcttccacgaagttgccaggtgttcttacttgttgatg-cattttagATACGGCGATGGAGAACCGACGGATAATGCTGCTCGCTTTTACAAATGGTTTGTCGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatgtgagtttattggaagtgcccactcattgatgtttaaacttgacattgtagTTATGGAGATGGAGAGCCAACTGATAATGCTGCTAGATTTTACAAATGGTTTACTGAG
acttgac putative branch site (score: 4)
atgtttaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagatacttatatcagcaatttgtgaaatttttgaaaatatgcgtgtgaaatttttgaaagtatgcgagtttattggaaaaatatgtgagtttattggaagtgcccactcattgatgtttaaacttgacattgtagTTATGGAGATGGAGAGCCAACTGATAATGCTGCTAGATTTTACAAATGGTTTACTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT