Sequence
atgc intronic sequence ATGC exonic sequencegtttgtcatactctctcatcttttgtccttaacttagtattacctagtttaatgtgtagtaatgttactaaattggtttacagGTATGTAGCCCCTGAGTATGCTATGACTGGACATCTACTAGTAAAAAGTGATGTTTACAGCTATGGAGTTGTCCTCCTTGAGTTGTTGACAGGGAGAAGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g01590.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os01g14932.1 (Oryza sativa), 3'ss of exon 6
gtttgtcatactctctcatcttttgtccttaacttagtattacctagtttaatgtgtagtaatgttactaaattggtttacagGTATGTAGCCCCTGAGTATGCTATGACTGGACATCTACTAGTAAAAAGTGATGTTTACAGCTATGGAGTTGTCCTCCTTGAGTTGTTGACAGGGAGAAGG
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-gtaagcaggttgac-caccttgaagtactccccagatgtt-tctgctctgcttttgcttcatatagctgtcgtgcttt-cagGTATGTAGCACCAGAGTATGCAATGACAGGACACTTGCTTGTAAAAAGCGATGTATATAGCTATGGAGTTGTTCTACTTGAACTACTTACTGGGAGGAGG
upper sequence: Vv07s0005g01590.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G180065_T01 (Zea mays), 3'ss of exon 6
-------gtttgtcatact--ctctcatcttttgtccttaacttagta-ttacctagtttaatgtgtagtaatgttactaaattgg----tttacagGTATGTAGCCCCTGAGTATGCTATGACTGGACATCTACTAGTAAAAAGTGATGTTTACAGCTATGGAGTTGTCCTCCTTGAGTTGTTGACAGGGAGAAGG
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gtaatctgaatgtccttttacatttagccatgggtccatggcccagcaatttattttctgaatttaccttcaccttgtacttctggcctttttgcagGTATGTTGCACCGGAGTACGCCATGACAGGACACTTGCTTGTAAAAAGTGATGTATATAGCTATGGAGTTGTTCTACTTGAACTACTAACTGGGAGGAGG
upper sequence: Vv07s0005g01590.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G01480.1 (Glycine max), 3'ss of exon 5
gtttgtcatactctctcatcttttgtccttaacttagtattacctagtttaatgtgtagtaatgttactaaattggtttacagGTATGTAGCCCCTGAGTATGCTATGACTGGACATCTACTAGTAAAAAGTGATGTTTACAGCTATGGAGTTGTCCTCCTTGAGTTGTTGACAGGGAGAAGG
||| || | ||| | | | || | ||| ||| | | | || ||||| | || ||| | ||| || | || ||||||||||| ||||| ||||||||||||||||| || ||||| ||||| |||||||| ||||| || |||||| | || || |||||| || || |
gttagtttcattcttttctttcttatacttg--ttattttcatttaatttaaatttaag--atgaaatgaaactgttatatagGTATGTAGCGCCTGAATATGCTATGACTGGACACCTGCTAGTTAAAAGCGATGTTTATAGCTACGGCGTTGTCTTGCTGGAACTGTTGATCGGAAGGAAA
upper sequence: Vv07s0005g01590.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA19G40500.1 (Glycine max), 3'ss of exon 6
gtttgtcatactctctcatcttttgtccttaacttagtattacctagtttaatgtgtagtaatgttactaaattggtttacagGTATGTAGCCCCTGAGTATGCTATGACTGGACATCTACTAGTAAAAAGTGATGTTTACAGCTATGGAGTTGTCCTCCTTGAGTTGTTGACAGGGAGAAGG
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gttagtcttgatatattctatcttagacttg--ttatttgcatataatttaattttgtaaggttaaattaaacttctatgtagGTACGTAGCTCCTGAATATGCCATGACTGGGCACCTACTTGTTAAAAGTGATGTTTATAGCTATGGTGTTGTCTTGCTGGAACTGCTTACTGGTAGGAAG
upper sequence: Vv07s0005g01590.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA03G37910.1 (Glycine max), 3'ss of exon 7
-----gtttgtcatactctctcatcttttgtccttaacttagtattacctagtttaatgtgtagtaatgttactaaattggtttacagGTATGTAGCCCCTGAGTATGCTATGACTGGACATCTACTAGTAAAAAGTGATGTTTACAGCTATGGAGTTGTCCTCCTTGAGTTGTTGACAGGGAGAAGG
||| ||| ||| |||| |||| | | ||| | | || |||||| | | | | ||| | | | ||||| || || ||||| ||||| ||||||||||| ||||| || |||||||| ||||| |||||||| |||||| | || || || | || || || | |
gttagtcttgatatattctttcattctttgacttg---ttatttccatataatttaattttttaaggttaaatgaaacttctatgtagGTACGTTGCTCCTGAATATGCCATGACTGGACACCTACTTGTTAAAAGTGACGTTTATAGCTATGGTGTTGTCTTGCTGGAACTGCTTACTGGCAGGAAG
upper sequence: Vv07s0005g01590.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA10G01520.1 (Glycine max), 3'ss of exon 5
gtttgtcatactctctcatcttttgtccttaacttagtattacctagtttaatgtgtagtaatgttactaaattggtttacagGTATGTAGCCCCTGAGTATGCTATGACTGGACATCTACTAGTAAAAAGTGATGTTTACAGCTATGGAGTTGTCCTCCTTGAGTTGTTGACAGGGAGAAGG
||| || | ||| | || | || | | | ||| | | | || ||| || | ||| | ||| || | | ||||||||||| || |||||||| ||||| ||||| ||||| || ||||| || ||||| ||||| || |||||| | || || ||||||| || || |
gttagtttcattctattatttcttatacctg--ttattttcatttaattt--tgatttaagatgaaatgaaactgttatgtagGTATGTAGCGCCCGAGTATGCCATGACCGGACACCTACTTGTTAAAAGCGACGTTTATAGCTACGGGGTTGTCTTGCTGGAACTGTTGACCGGAAGGAAA
upper sequence: Vv07s0005g01590.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S478_19V6.1 (Physcomitrella patens), 3'ss of exon 7
-------------------------------------------------gtttgtcatactctctcatcttttgtccttaactta--gtattacctagttt--aatgtgtagta---------atgtt-actaaattggtttacagGTATGTAGCCCCTGAGTATGCTATGACTGGACATCTACTAGTAAAAAGTGATGTTTACAGCTATGGAGTTGTCCTCCTTGAGTTGTTGACAGGGAGAAGG
|| | | | | ||| || | | | | | ||||||| || ||||| | || ||||| ||| ||| | |||| ||||| || ||||| || || ||||||||||| ||||| || ||||||||||| ||||||| |||||| || | | ||||| | |||| || | |
gtaattattacgttcttttccacaagttacttcttgtacgagaatcaattttagacctgatttcttgtcctctaaatcaatttgaatgtattactagaattcaaatgtcttgtttctactcttatgtttactttcttgtctgacagATATGTGGCACCTGAATACGCCATGACTGGACACCTACTGGTGAAAAGTGATGTCTACAGCTTTGGAGTAGTGTTGTTAGAGTTACTCTCAGGCAGGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaacttagtattacctagtttaatgtgtagtaatgttactaaattggtttacagGTATGTAGCCCCTGAGTATGCTATGACTGGACATCTACTAGTAAAAAGTGATGTTTACAGCTATGGAGTTGTCCTCCTTGAGTTGTTGACAGGGAGAAGG
tactaaa putative branch site (score: 1)
taatgttactaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtcatactctctcatcttttgtccttaacttagtattacctagtttaatgtgtagtaatgttactaaattggtttacagGTATGTAGCCCCTGAGTATGCTATGACTGGACATCTACTAGTAAAAAGTGATGTTTACAGCTATGGAGTTGTCCTCCTTGAGTTGTTGACAGGGAGAAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA