Sequence
atgc intronic sequence ATGC exonic sequence...ttcttgaattcccaggatcgaacctgatttattttatctacattttcaaagcatcatttggtggatcaccatttttatatgttctctgctttatttacagGTCAAGTATATTTGATGCAAAGGCCGGGATAGGGCTGAGTGCTTCCTTCATGAAGCTCGTTGCATGGTATGACAACGAATGGGGATACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0085g00600.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: LOC_Os02g07490.1 (Oryza sativa), 3'ss of exon 12
ttcttgaattcccaggatcgaacctgatttattttatctacattttcaaagcatcatttggtggatcaccatttttatatgttctctgctttatttacagGTCAAGTATATTTGATGCAAAGGCCGGGATAGGGCTGAGTGCTTCCTTCATGAAGCTCGTTGCATGGTATGACAACGAATGGGGATACAG
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---gtaagtacttctagatgtacc-gatgtaaattgtgt-tgtgctcaaaaggg-----agtggttgaca-----taactgcccctttctgcatat-cagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCATGAAGCTTGTGTCATGGTATGACAACGAGTGGGGCTACAG
upper sequence: Vv19s0085g00600.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: LOC_Os06g45590.1 (Oryza sativa), 3'ss of exon 12
ttcttgaattcccaggatcgaacctgatttattttatctacattttcaaagcatcatttggtggatcaccatttttatatgttctctgctttatttacagGTCAAGTATATTTGATGCAAAGGCCGGGATAGGGCTGAGTGCTTCCTTCATGAAGCTCGTTGCATGGTATGACAACGAATGGGGATACAG
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------------------gtaagtattttcgtcttcgcaatgttttt----cttgaacataggagcaaaaattgctaaagcctatctatatt--ttccagGTCTAGCATATTTGATGCCAAGGCTGGAATTGGCTTAAGTTCTTCTTTCATGAAGCTCGTCTCTTGGTACGACAACGAGTGGGGCTACAG
upper sequence: Vv19s0085g00600.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G104632_T01 (Zea mays), 3'ss of exon 12
ttcttgaattcccaggatcgaacctgatttattttatctacatt--ttcaaagcatcatttggtggatcaccatttttatatgttctctgctttattta-cagGTCAAGTATATTTGATGCAAAGGCCGGGATAGGGCTGAGTGCTTCCTTCATGAAGCTCGTTGCATGGTATGACAACGAATGGGGATACAG
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--------------gtgactattttgatccagcgacgcaaccttattttggcctgtgagttggaatgtagctgaaatcac-tatcattgcctttgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCATGAAGCTCGTGTCTTGGTATGACAACGAGTGGGGCTACAG
upper sequence: Vv19s0085g00600.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G051004_T01 (Zea mays), 3'ss of exon 12
ttcttgaattcccaggatcgaacctgatttattttatctacattttcaaag--catcatttggtggatcaccatttttatatgttctctgctttatttacagGTCAAGTATATTTGATGCAAAGGCCGGGATAGGGCTGAGTGCTTCCTTCATGAAGCTCGTTGCATGGTATGACAACGAATGGGGATACAG
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-------------------gtgactacttcaatccagtgacgtaacctaattttgccctgtggggtgggaaggtagctgatcattgccttctgtatat-cagGTCAAGCATCTTTGATGCCAAGGCTGGTATCGGACTGAGCTCTTCTTTCATGAAGCTTGTGTCTTGGTATGACAACGAGTGGGGCTACAG
upper sequence: Vv19s0085g00600.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA03G22790.1 (Glycine max), 3'ss of exon 12
-------ttcttgaattcccaggatcgaacctgatttattttatctacattttcaaagcatcatttg-gtggatcaccatttttatatgttctctgctttatttacagGTCAAGTATATTTGATGCAAAGGCCGGGATAGGGCTGAGTGCTTCCTTCATGAAGCTCGTTGCATGGTATGACAACGAATGGGGATACAG
||| | ||| | | | || || | || | || | | || |||| || || || || | ||| ||| | | | |||||||||||| |||||||| ||||| || || | || ||||||||||| | ||||| ||| | ||||||||||| || ||||| |||||
aaattgaaccttcatttctctttccctagttagaatttactcatttggatgt----attattatttaagtaaatgacttgttcaaaatgaattct----tttctccagGTCAAGTATCTTTGATGCCAAGGCTGGCATTGCACTAAGTGCTTCCTTTGTTAAGCTGGTTTCGTGGTATGACAATGAGTGGGGTTACAG
upper sequence: Vv19s0085g00600.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA16G09020.1 (Glycine max), 3'ss of exon 12
-----ttcttgaattcccagga-tcgaacctgatttattttatctacattttcaaagcatcatttggtggatcaccatttttatatgttctctgctttatttacagGTCAAGTATATTTGATGCAAAGGCCGGGATAGGGCTGAGTGCTTCCTTCATGAAGCTCGTTGCATGGTATGACAACGAATGGGGATACAG
|||| || || || | || | | ||||| | | || ||||| || | ||| | ||| ||| | | | |||||| ||||| |||||||| ||||| || || | ||| ||||||||||| | ||||| ||| | ||||||||||| || ||||| |||||
taagaaaactgaaccttcatttctctttccctagctaaaatttactcatttg-gatgtattatttgtgaaataattattcaaa-atgaattct----tttctccagGTCGAGTATCTTTGATGCTAAGGCTGGCATTGCGCTTAGTGCTTCCTTTGTTAAGCTGGTTTCGTGGTATGACAATGAGTGGGGTTACAG
upper sequence: Vv19s0085g00600.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: EFJ15779 (Selaginella moellendorffii), 3'ss of exon 9
ttcttgaattcccaggatcgaacctgatttattttatctacattttcaaagcatcatttggtggatcaccatttttatatgttctctgctttatttacagGTCAAGTATATTTGATGCAAAGGCCGGGATAGGGCTGAGTGCTTCCTTCATGAAGCTCGTTGCATGGTATGACAACGAATGGGGATACAG
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----------------------------------------------gtatgaatcgcctggatgaatctaagccggaaa----ctgtgggtttgtaccagGTCGAGCATCTTTGACGCTGCTGCTGGAATTCCATTGAGCAAAAGCTTCGTCAAGGTCGTGGCGTGGTATGACAACGAATGGGGATACAG
upper sequence: Vv19s0085g00600.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: EFJ32914 (Selaginella moellendorffii), 3'ss of exon 11
ttcttgaattcccaggatcgaacctgatttattttatctacattttcaaagcatcatttggtggatcaccatttttatatgttctctgctttatttacagGTCAAGTATATTTGATGCAAAGGCCGGGATAGGGCTGAGTGCTTCCTTCATGAAGCTCGTTGCATGGTATGACAACGAATGGGGATACAG
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----------------------------------------------gtatgaatcacctagatgaatctaagccggaaa----ctgtgggtttgtgccagGTCGAGCATCTTTGACGCTGCTGCTGGAATTCCATTGAGCAAAAGCTTCGTCAAGCTCGTGGCGTGGTATGACAACGAATGGGGATACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaaagcatcatttggtggatcaccatttttatatgttctctgctttatttacagGTCAAGTATATTTGATGCAAAGGCCGGGATAGGGCTGAGTGCTTCCTTCATGAAGCTCGTTGCATGGTATGACAACGAATGGGGATACAG
ttctctgctttattt CT-rich tract
atttttatatgttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttcttgaattcccaggatcgaacctgatttattttatctacattttcaaagcatcatttggtggatcaccatttttatatgttctctgctttatttacagGTCAAGTATATTTGATGCAAAGGCCGGGATAGGGCTGAGTGCTTCCTTCATGAAGCTCGTTGCATGGTATGACAACGAATGGGGATACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - -attccca
- - - - - - - - - - - cctgatt
- - - - - - - - - - - - - - - - - - - - - - - caaagca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggtgga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caccatt