Sequence
atgc intronic sequence ATGC exonic sequencegtaatttgaagatttattgcttttagaccttgaatcttttttatccagttctgcaatggctgaaggaatgtatagtttttttggttgattcacatctatttctattttatttttggagtttcagATACTTGGGAACCAACTTGAACCTTTAACAGATCAGCAGCTGATGGGCATATGTAATCTACAACAGTCCTCACAGCAAGCTGAGGATGCATTATCACAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g03230.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA02G10820.1 (Glycine max), 3'ss of exon 1
gtaatttgaagatttattgcttttagaccttgaatcttttttatccagttctgcaatggctgaaggaatgtatagtttttttggttgattcacatctatttctattttatttttggagtttcagATACTTGGGAACCAACTTGAACCTTTAACAGATCAGCAGCTGATGGGCATATGTAATCTACAACAGTCCTCACAGCAAGCTGAGGATGCATTATCACAAG
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-------cgagttaggtcaaatccacattctaaaatgatagtaattaacttcactt---------gtgtacataatttgtttgttt--------ttgactcgtttcttgtattttgggtttcagATCATCAAGAACCACCTTGAGCCATTAACAGATCAGCAGTTGATGGGAATTTGTAATCTACAACAGTCTTCCCAGCAGGCTGAGGATGCTTTAAATCAAG
upper sequence: Vv01s0011g03230.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA01G21010.1 (Glycine max), 3'ss of exon 1
gtaatttgaagatttattgcttttagaccttgaatcttttttatccagttctgcaatggctgaaggaatgtatagtttttttggttgattcacatctatttctattttatttttggagtttcagATACTTGGGAACCAACTTGAACCTTTAACAGATCAGCAGCTGATGGGCATATGTAATCTACAACAGTCCTCACAGCAAGCTGAGGATGCATTATCACAAG
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-------------------gtgattgacc---aattaagtacttcca-ttttctagtaacttcacttgtgtatatagtttgttgttgactcatttctcgtc---------ttttggagtt-cagATCATCAAGAACCACCTTGAGCCATTAACAGATCAGCAGTTGATGGGAATTTATAATCTGCAACAGTCTTCCCAGCAGGCTGAGGATGCTTTATCTCAAG
upper sequence: Vv01s0011g03230.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA10G42280.1 (Glycine max), 3'ss of exon 9
gtaatttgaagatttattgcttttagaccttgaatcttttttatccagttctgcaatggctgaaggaatgtatagtttttttggttgattcacatctatttctattttatttttggagtttcagATACTTGGGAACCAACTTGAACCTTTAACAGATCAGCAGCTGATGGGCATATGTAATCTACAACAGTCCTCACAGCAAGCTGAGGATGCATTATCACAAG
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--------gtgattgattgaccat-----ttgagtttctcacatttgctttt-ctatggt--atagagtatatattctgtcttg-------------agtgttaatgaatcttttgtg---cagATAGTTAGAAACCAGCTTGAGCCGTTAACCGAACAGCAGTTGATGGGCATTTACAATCTGCAGCAGTCTTCCCAGCAGGCTGAGGATGCATTATCACAAG
upper sequence: Vv01s0011g03230.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA20G24770.1 (Glycine max), 3'ss of exon 2
gtaatttgaagatttattgcttttagaccttgaatcttttttatccagttctgcaatggc-tgaaggaatgtatagtttttttggttgattcacatctatttctattttatttttggagtttcagATACTTGGGAACCAACTTGAACCTTTAACAGATCAGCAGCTGATGGGCATATGTAATCTACAACAGTCCTCACAGCAAGCTGAGGATGCATTATCACAAG
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-------------------gtgattgacc----atttcagttactcacatttgcttttatacggtagagtatatgttccgtatgag-ggttgatgaatattttgggcacaacttttgaaactcagATAGTTAGAAACCAGCTTGAGCCGTTAACCGAACAGCAGTTGATGGGCATTTACAATCTGCAGCAGTCTTCCCAGCAGGCAGAGGATGCATTATCACAAG
upper sequence: Vv01s0011g03230.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: EFJ29724 (Selaginella moellendorffii), 3'ss of exon 6
gtaatttgaagatttattgcttttagaccttgaatcttttttatccagttctgcaatggctgaaggaatgtatagtttttttggttgattcacatctatttctattttatttttggagtttcagATACTTGGGAACCAACTTGAACCTTTAACAGATCAGCAGCTGATGGGCATATGTAATCTACAACAGTCCTCACAGCAAGCTGAGGATGCATTATCACAAG
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--------------------------------------------------------gtgctgctgtg-tctttcttttcctcgtttttttcgaaagtgcttaacgtttttgtgtgacaccacagATACTTATACCTCAGCTTGAACCCCTTACAGAACAGCAGCTCATGGGGATTTGTAATCTACAACAGTCGTCGCAGCAGGCCGAGGATGCTCTCTCCCAGG
upper sequence: Vv01s0011g03230.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: EFJ28227 (Selaginella moellendorffii), 3'ss of exon 6
gtaatttgaagatttattgcttttagaccttgaatcttttttatccagttctgcaatggctgaaggaatgtatagtttttttggttgattcacatctatttctattttatttttggagtttcagATACTTGGGAACCAACTTGAACCTTTAACAGATCAGCAGCTGATGGGCATATGTAATCTACAACAGTCCTCACAGCAAGCTGAGGATGCATTATCACAAG
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--------------------------------------------------------gtgctgctgtg-tctttcttttcctcgttttttccgaaagtgcttaacgtttttgtgtgacaccacagATACTTATACCTCAGCTTGAACCCCTTACAGAACAGCAGCTCATGGGGATTTGTAATCTACAACAGTCGTCGCAGCAGGCCGAGGATGCTCTCTCCCAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtatagtttttttggttgattcacatctatttctattttatttttggagtttcagATACTTGGGAACCAACTTGAACCTTTAACAGATCAGCAGCTGATGGGCATATGTAATCTACAACAGTCCTCACAGCAAGCTGAGGATGCATTATCACAAG
ggttgat putative branch site (score: 5)
attcacatctatttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatttgaagatttattgcttttagaccttgaatcttttttatccagttctgcaatggctgaaggaatgtatagtttttttggttgattcacatctatttctattttatttttggagtttcagATACTTGGGAACCAACTTGAACCTTTAACAGATCAGCAGCTGATGGGCATATGTAATCTACAACAGTCCTCACAGCAAGCTGAGGATGCATTATCACAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG