Sequence
atgc intronic sequence ATGC exonic sequence...cgggcctcaagggcttctaattgttactattatgtcaccctctttttgtgtaggaccttattgtcaagctaataactttttacttaatcaaaattttcagGGATGGTGATCTTCCTCTTATTGTGGCGATTGATTTGCAGCCCATGGCTCCAATTGAAGGGGTGATTCAAGTCCAGGGTGATATAACAAATGCTCGTACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g01960.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os06g49140.1 (Oryza sativa), 3'ss of exon 4
cgggcctcaagggcttctaattgttactattatgtcaccctctttttgtgtaggaccttattgtca--agctaataacttt------ttacttaatcaaaatttt--cagGGATGGTGATCTTCCTCTTATTGTGGCGATTGATTTGCAGCCCATGGCTCCAATTGAAGGGGTGATTCAAGTCCAGGGTGATATAACAAATGCTCGTACA
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------------gtaagtactagtttc-agcgcggcactgtctgttccagcagggttatgttcttagcatctgattattttgcctcgttgtttatgggggattatactagAGAAGGTGACCTTCCTCTTATTGTTGCCATTGATTTGCAACCAATGGCTCCGATAGAAGGCGTTATACAAGTTCAAGGGGACATCACTAATGCTCGAACA
upper sequence: Vv08s0007g01960.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G083745_T03 (Zea mays), 3'ss of exon 4
-cgggcctcaagggcttctaattgtta-ctattatgtcaccctctttttgtgtaggaccttattgtcaagctaataactttt----tacttaatcaaa---------attttcagGGATGGTGATCTTCCTCTTATTGTGGCGATTGATTTGCAGCCCATGGCTCCAATTGAAGGGGTGATTCAAGTCCAGGGTGATATAACAAATGCTCGTACA
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gtaagagtcagtgcctgtgtgtcgcagtctgttcttgcatagttctgttgtggat-atctgatggcctcgttttgcacttttgctctccttggttctgttatgttgtgctactagGGAAGGTGATCTTCCTCTCATCGTCGCAATTGACTTGCAACCGATGGCCCCAATAGAAGGTGTTATACAAGTGCAGGGCGACATCACCAATGCTCGGACA
upper sequence: Vv08s0007g01960.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA13G31380.1 (Glycine max), 3'ss of exon 5
---cgggcctcaagggcttctaattgttactattatgtcaccctctttttgtgtaggaccttattgtcaagctaataactttttacttaatcaaaattttcagGGATGGTGATCTTCCTCTTATTGTGGCGATTGATTTGCAGCCCATGGCTCCAATTGAAGGGGTGATTCAAGTCCAGGGTGATATAACAAATGCTCGTACA
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tttctttcttttattaaaaaaaatgtgtcttattgaatcacttgtattatctctctgtctctatcaata--tcatcaatttcttgctgcatcatg-tatgcagGGATGAAAATCTTCCTCTTATTGTAGCTATTGATTTGCAACCAATGGCTCCAATTGAAGGTGTCATCCAGGTGCAGGGTGATATAACTAATGCTCGGACA
upper sequence: Vv08s0007g01960.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA15G07970.3 (Glycine max), 3'ss of exon 4
----cgggcctcaagggcttctaattgttactattatgtcaccctctttttgtgtaggaccttattgtcaagctaataactttttacttaatcaaaattttcagGGATGGTGATCTTCCTCTTATTGTGGCGATTGATTTGCAGCCCATGGCTCCAATTGAAGGGGTGATTCAAGTCCAGGGTGATATAACAAATGCTCGTACA
| | | | | ||| |||| |||| || | | | | | ||| | | || || || || || | | |||||||| |||||||||||||||| || ||||||||||| || ||||||||||||||||| || || || || |||||||||||||| || ||||| |||
aattctttcttttattaaaaaaatgtgtc-ttattgaatcacttatattatctctctgtctctatcaata--tcatcaatttcttgctgcgccatg-tatgcagGGATGAAAATCTTCCTCTTATTGTAGCTATTGATTTGCAACCAATGGCTCCAATTGAAGGTGTCATCCAGGTGCAGGGTGATATAACTAACGCTCGGACA
upper sequence: Vv08s0007g01960.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT5G01230.1 (Arabidopsis thaliana), 3'ss of exon 5
---cgggcctcaagggcttctaattgttacta-ttatgtcaccctctttttgtgtaggaccttatt-gtcaagct---aataactttttact-taatcaaaattttcagGGATGGTGATCTTCCTCTTATTGTGGCGATTGATTTGCAGCCCATGGCTCCAATTGAAGGGGTGATTCAAGTCCAGGGTGATATAACAAATGCTCGTACA
| ||| | || | || || | | | || | | ||| | |||| | |||| | | | | || ||||| | | | | | ||| ||||| |||||||||||||| || || || ||||||||||| ||||||||||||||||| || || || || || || || ||||| |||||||| ||
gtaagtttctcttccaccatcgtttttctttagttgttttaatctgctagttagtaatccactatttgacaaggttgaactgatttgttactgttgaaacactatgcagAGATGGGGATCTTCCTCTTATAGTAGCCATCGATTTGCAGCCTATGGCTCCAATTGAAGGTGTCATCCAGGTTCAAGGGGACATAACTAATGCTCGGACT
upper sequence: Vv08s0007g01960.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ07303 (Selaginella moellendorffii), 3'ss of exon 4
cgggcctcaagggcttctaattgttactattatgtcaccctctttttgtgtaggaccttattgtcaagctaataactttttacttaatcaaaattttcagGGATGGTGATCTTCCTCTTATTGTGGCGATTGATTTGCAGCCCATGGCTCCAATTGAAGGGGTGATTCAAGTCCAGGGTGATATAACAAATGCTCGTACA
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-------------------gtgataagtaagagctttgccttcctttttctctcctttctttgtgagga-aaagATTTATCACTGTGTT----CTTCTAGGCAGGATGATCGACCTCTTATTGTGGCTATTGATTTGCAGCCAATGGCCCCTATTGATGGTGTCGTTCAAATTCAAGG---------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgtgtaggaccttattgtcaagctaataactttttacttaatcaaaattttcagGGATGGTGATCTTCCTCTTATTGTGGCGATTGATTTGCAGCCCATGGCTCCAATTGAAGGGGTGATTCAAGTCCAGGGTGATATAACAAATGCTCGTACA
ttttc CT-rich tract
taataactttttactt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cgggcctcaagggcttctaattgttactattatgtcaccctctttttgtgtaggaccttattgtcaagctaataactttttacttaatcaaaattttcagGGATGGTGATCTTCCTCTTATTGTGGCGATTGATTTGCAGCCCATGGCTCCAATTGAAGGGGTGATTCAAGTCCAGGGTGATATAACAAATGCTCGTACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- -gcctcaa
- - - - - - - - - - - - - - - - - - -ccctctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcaagct