Sequence
atgc intronic sequence ATGC exonic sequencegtagagataatgtattgaatcaatttttttatgtgcatattcattttcctcttatgcatatctaattgtcttttatagctctgtctgatcccgggtatttgatcacggattaagGAGAAGCTCCCACCCACGGATTCAAGACTTAGACCAGATCAACGACATCTAGAGAATGGAGAATATGAAAAGGCAAATGCAGAAAAACTACGGTTAGAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0154g00250.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os10g40590.1 (Oryza sativa), 3'ss of exon 8
gtagagataatgtattgaatcaatttttttatgtgcatattcattttcctcttatgcatatctaattgtcttttatagctctgtctgatcccgggtatttgatcacggattaagGAGAAGCTCCCACCCACGGATTCAAGACTTAGACCAGATCAACGACATCTAGAGAATGGAGAATATGAAAAGGCAAATGCAGAAAAACTACGGTTAGAGA
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----------------------------gtatgcgcaaag-catataattc----gcctat-tgttagttttttgtagtgcaaagcctaacgtactatttgatgatttgttaagGAGAAGCTTCCACCAACGGATTCAAGACTCAGGCCAGATCAGCGGCATCTAGAGAATGGGGAGTACGAAAAGGCTAACTCTGAAAAATTGCGCCTGGAGA
upper sequence: Vv02s0154g00250.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G409265_T03 (Zea mays), 3'ss of exon 3
gtagagataatgtattgaatcaatttttttatgtg-catattcattttcctcttatgcatatctaattgtcttttatagctctgtctgatcccgggtatttgatcacggattaagGAGAAGCTCCCACCCACGGATTCAAGACTTAGACCAGATCAACGACATCTAGAGAATGGAGAATATGAAAAGGCAAATGCAGAAAAACTACGGTTAGAGA
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------------------------gtacacatggaacataaatataacccatcattggacttccgttagttcttaacctataatgctaaggc-acatttctacccttttgttaagGAGAAGCTGCCACCAACGGATTCAAGGCTGAGACCAGATCAACGTCACCTGGAGAATGGGGAGTACGAGAAGGCCAATGCTGAAAAACTGCGTCTCGAGA
upper sequence: Vv02s0154g00250.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G061099_T01 (Zea mays), 3'ss of exon 8
gtagagataatgtattgaatcaatttttttatgtgcatattcat-tttcctcttatgcatatctaattgtcttttatagctctgtctgatcccgggtatttgat-cacggattaagGAGAAGCTCCCACCCACGGATTCAAGACTTAGACCAGATCAACGACATCTAGAGAATGGAGAATATGAAAAGGCAAATGCAGAAAAACTACGGTTAGAGA
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------------------------gtacacatg-gaacatacatatatcccataatctgagttctgttagctcttaacctaaaaggctacgacacatcttttacgctcttgttaagGAGAAGCTGCCACCGACGGATTCAAGGCTGAGACCAGATCAACGGCACCTGGAGAATGGGGAGTACGAGAAGGCCAATGCTGAAAAACTGCGCCTCGAGA
upper sequence: Vv02s0154g00250.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM5G875564_T01 (Zea mays), 3'ss of exon 8
gtagagataatgtattgaatcaatttttttatgtgcatattcattttcctcttatgcatatctaattgtcttttatagctctgtctgatcccgggtatttgatcacggattaagGAGAAGCTCCCACCCACGGATTCAAGACTTAGACCAGATCAACGACATCTAGAGAATGGAGAATATGAAAAGGCAAATGCAGAAAAACTACGGTTAGAGA
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------------------------------gtaggtagatataggtcgttatgatgcctcctttgttgt----tagcgccacttctga--------att--gctgctggtta-gGAGAGCCTTCCACCAACGGATTCAAGACTCAGACCAGATCAGCGACATGTAGAGAACGGGGAGTATAGTAAGGCCAATGCTGAGAAGCTGCGACTGGAGA
upper sequence: Vv02s0154g00250.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA01G41940.1 (Glycine max), 3'ss of exon 8
gtaga-gataatgtattgaatcaatttttttatgtgcatattcattttcctcttatgca---tatctaattgtcttttatagctctgtctgatcccgggtatttgatcacggattaa-gGAGAAGCTCCCACCCACGGATTCAAGACTTAGACCAGATCAACGACATCTAGAGAATGGAGAATATGAAAAGGCAAATGCAGAAAAACTACGGTTAGAGA
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gtatataatgatgtattagatca-ttatttgatacgcat-tccacttcttatatatgcgtcgtctctaattgttgtttatagctttttctgatcccgggtatttgatcacggattaaagGAGAAACTCCCGCCCACGGATTCCAGGCTCAGACCAGATCAACGGCATCTAGAGAATGGGGAATACGAGAAGGCCAATTTGGAGAAACAAAGGTTGGAAA
upper sequence: Vv02s0154g00250.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA11G03420.1 (Glycine max), 3'ss of exon 10
gtaga-gataatgtattgaatcaatttttttatgtgcatattcattttcctct-tatgcatatctaattgtcttttatagctctgtctgatcccgggtatttgatcacggattaa-gGAGAAGCTCCCACCCACGGATTCAAGACTTAGACCAGATCAACGACATCTAGAGAATGGAGAATATGAAAAGGCAAATGCAGAAAAACTACGGTTAGAGA
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gtatataatgatgtattagatcattatttgatagtacgcattccacttcttatatatgcgtctctaattgttgtttatagCTTTTTCTGATCCCGGGTATTTGATCACGGATTAAAGGAGAAGCTCCCGCCCACGGATTCCAGGCTCAGACCAGATCAACGGGATCTAGAGAATGGGGAA-------------------------------------
upper sequence: Vv02s0154g00250.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA17G14820.1 (Glycine max), 3'ss of exon 9
gtagagataatgtattgaatcaatttttttatgtgcatattcatttt-cctcttatgcatatctaattgtcttttatagctctgtctgatcccgggta-tttgatcacggattaa-gGAGAAGCTCCCACCCACGGATTCAAGACTTAGACCAGATCAACGACATCTAGAGAATGGAGAATATGAAAAGGCAAATGCAGAAAAACTACGGTTAGAGA
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gtata-atgatgtattaaatca-ttattcgatgtgcgttttcctttttcttcttatgcatctctaattctttgttatagccttttctgatcccgggtaatttgatcacggattaaagGAGAAGCTTCCACCCACGGATTCCAGGCTGAGACCAGACCAGCGACATCTAGAGAATGGGGAATACGAGAAGGCTAATATGGAGAAACAAAGGTTGGAAA
upper sequence: Vv02s0154g00250.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA05G04340.2 (Glycine max), 3'ss of exon 9
gtagagataatgtattgaatcaatttttttatgtgcatattcatttt-cctcttatgcatatctaattgtcttttatagctctgtctgatcccgggta-tttgatcacggattaa-gGAGAAGCTCCCACCCACGGATTCAAGACTTAGACCAGATCAACGACATCTAGAGAATGGAGAATATGAAAAGGCAAATGCAGAAAAACTACGGTTAGAGA
||| | || ||||||| ||||| || || |||||| | ||| |||| | |||||||||| ||||||| | | ||||||| | |||||||||||||| |||||||||||||||| ||||||||| |||||||||||||| || || ||||||||||| || |||||||||||||| ||||| || ||||| ||| ||||||| | |||| || |
gtata-atgatgtattaaatca-ttattcgatgtgcgttttcttttttcttcttatgcatctctaattctttgttatagccttttctgatcccgggtaatttgatcacggattaaagGAGAAGCTTCCACCCACGGATTCCAGGCTGAGACCAGATCAGCGGCATCTAGAGAATGGGGAATACGAGAAGGCTAATATGGAAAAACAAAGGTTGGAAA
upper sequence: Vv02s0154g00250.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT4G22540.3 (Arabidopsis thaliana), 3'ss of exon 8
gtagagataatgtattgaatcaatttttttatgtgcatattcattttcctcttatgcatatctaattgtcttttatagctctgtctgatcccgggt--atttgatcacggattaagGAGAAGCTCCCACCCACGGATTCAAGACTTAGACCAGATCAACGACATCTAGAGAATGGAGAATATGAAAAGGCAAATGCAGAAAAACTACGGTTAGAGA
| | || | ||| | ||| ||||| ||| | ||| ||| || | | ||||| ||||||||| | || | ||||| | |||| |||||| || || ||||| || || || || |||||||||||||| ||||| |||||||| |||||||| ||||| || ||| |||| ||||||||| |
---------gtatgttcagatggtttaatcttgtttttattctgtttatggat-tgc-tatactatcttttcatatagacttgtctgatcttgtgttaacttgatgatggatgtagGAGATACTTCCTCCCACAGACTCTAGGCTCAGACCAGATCAACGGCATCTTGAGAATGGTGAATATGAGAAGGCGAACTTAGAGAAACAACGGTTAGAAA
upper sequence: Vv02s0154g00250.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT4G12460.1 (Arabidopsis thaliana), 3'ss of exon 8
--gtagagataatgtattgaatcaatttttttatgtgcatattcattttcctcttatgc-atatctaattgtcttttatagct-ctgtctgatc---ccgggtatttgatcac--ggattaagGAGAAGCTCCCACCCACGGATTCAAGACTTAGACCAGATCAACGACATCTAGAGAATGGAGAATATGAAAAGGCAAATGCAGAAAAACTACGGTTAGAGA
|| || | | || | | ||| | ||| | || ||||| || ||| || | | | || |||| |||| ||||| || |||| || | || ||||||| ||||| || || || ||||| || || |||||||||||||||| | ||||| || |||||||| |||||||||| ||| |||| | | |||||||
gtatattagtatttttttaattttggatttgtttgtaaacatgaattttgggtttctgctgtacttgaaatcttgttttagcaactgtgtgatcttttcgtaattttgttcccttggtttaagGAAAAGCTGCCTCCAACAGATTCTAGGCTCCGACCAGATCAACGACACTTGGAGAACGGTGAATATGAGAAGGCAAATGAAGAGAAACAAAGATTAGAGA
upper sequence: Vv02s0154g00250.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT4G12460.2 (Arabidopsis thaliana), 3'ss of exon 8
--gtagagataatgtattgaatcaatttttttatgtgcatattcattttcctcttatgc-atatctaattgtcttttatagct-ctgtctgatcc---cgggtatttgatcac--ggattaagGAGAAGCTCCCACCCACGGATTCAAGACTTAGACCAGATCAACGACATCTAGAGAATGGAGAATATGAAAAGGCAAATGCAGAAAAACTACGGTTAGAGA------
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gtatattagtatttttttaattttggatttgtttgtaaacatgaattttgggtttctgctgtacttgaaatcttgttttagcaactgtgtgatcttttcgtaattttgttcccttggtttaaggaaaagCTGCCTCCAACAGATTCTAGGCTCCGACCAGATCAACGACACTTGGAGAACGGTGAATATGAGAAGGCAAATGAAGAGAAACAAAGATTAGAGAGAAGAC
upper sequence: Vv02s0154g00250.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: PP1S40_145V6.1 (Physcomitrella patens), 3'ss of exon 8
-------------------gtagagataatgtattgaatcaatttttttatgtgcatattcattttcctc--ttatgcatatctaattgtcttttatagctctgtctgatcccgggtatttgatcacggattaagGAGAAGCTCCCACCCACGGATTCAAGACTTAGACCAGATCAACGACATCTAGAGAATGGAGAATATGAAAAGGCAAATGCAGAAAAACTACGGTTAGAGA
|| ||| | | || || ||| | | | || || | | | | || | | | | || | | | | | || | | ||||| ||| | ||||| || |||||||| | ||||| |||||| |||||||||||||||| |||||||| || ||| |||||||||| || | ||
gtaagtatctgtagtttattcaggcatacactcgagcttcgcttaacttacgccaacgtaaatcttttgcagcttagtggaaacgatactttggtcgatctttacccacttatagatgtt--gtttgttttgaagGAAAAGTTGCCACCTACAGATTCAAGGTTGAGACCTGATCAAAGACATCTAGAGAATGGCGAATATGATGCTGCCAATTCAGAAAAACTGCGACTTGAAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atctaattgtcttttatagctctgtctgatcccgggtatttgatcacggattaagGAGAAGCTCCCACCCACGGATTCAAGACTTAGACCAGATCAACGACATCTAGAGAATGGAGAATATGAAAAGGCAAATGCAGAAAAACTACGGTTAGAGA
tcttttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagagataatgtattgaatcaatttttttatgtgcatattcattttcctcttatgcatatctaattgtcttttatagctctgtctgatcccgggtatttgatcacggattaagGAGAAGCTCCCACCCACGGATTCAAGACTTAGACCAGATCAACGACATCTAGAGAATGGAGAATATGAAAAGGCAAATGCAGAAAAACTACGGTTAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA