Sequence
atgc intronic sequence ATGC exonic sequencegtaagttattttatgtcagatattgtgatgcatgtgcctaatcctttcattttaaattattctaattggattgtagGTTGGAATATTCGATGCCACAAACAGTACCAGGAAACGAAGGAATATGCTGATGAAAATGGCTGAGGGAAATTGCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g06920.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os05g07130.1 (Oryza sativa), 3'ss of exon 10
gtaagttattttatgtcagatattgtgatgcatgtgcctaatcctttcattttaaattattctaattggattgtagGTTGGAATATTCGATGCCACAAACAGTACCAGGAAACGAAGGAATATGCTGATGAAAATGGCTGAGGGAAATTGCAAG
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gtaagctggtttctgttgcatagcctgcttcaaatg--taatg--ttcgttttgaccgggcccagttgtgtc-tagGTCGGTATATTTGATGCGACAAACAGCACAAGAAAACGAAGGTATATGCTAATGAAAATGGCTGAAGGGAACTGTAAG
upper sequence: Vv06s0004g06920.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os03g18310.3 (Oryza sativa), 3'ss of exon 9
gtaagttattttatgtcagatattgtgatg-catgtgcctaat-cctttcattttaaattattctaattggattgtagGTTGGAATATTCGATGCCACAAACAGTACCAGGAAACGAAGGAATATGCTGATGAAAATGGCTGAGGGAAATTGCAAG
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----------gtaagttagaagttttggtgatattctgttattacgctggataatttattcttctttctggtccatagGTAGGTATCTTTGATGCCACAAACAGCACAAGAAACCGGAGAAATATGCTGATGAAAATGGCGGAAGGCAAGTGTAAG
upper sequence: Vv06s0004g06920.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM5G824405_T02 (Zea mays), 3'ss of exon 8
gtaagttattttatgtcagatattgtgatgcatgtgcctaatcctttcattttaaatta--ttctaattggattgtagGTTGGAATATTCGATGCCACAAACAGTACCAGGAAACGAAGGAATATGCTGATGAAAATGGCTGAGGGAAATTGCAAG
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----------gtaggccactgattggtagcactgcgttagagctcttcaat---gattaactttcagctggtctgcagGTTGGTATTTTCGATGCCACAAACAGCACAAGAATACGGAGGAACATGCTGATGAAAATGGCTGAAGGAAAATGTAAG
upper sequence: Vv06s0004g06920.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA18G06770.1 (Glycine max), 3'ss of exon 12
gtaagttattttatgtcagata-ttgtgatgc----atgtgcctaatcctttcattttaaatta-ttctaattggattgtagGTTGGAATATTCGATGCCACAAACAGTACCAGGAAACGAAGGAATATGCTGATGAAAATGGCTGAGGGAAATTGCAAG
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gtaaatcattct-tgttgaatacttttgttactttaatatgttctttcatgttattttgcataagttttaatttcgatttagGTTGGGATATTTGATGCCACAAACAGTAGCAAGGAACGAAGAAACATGCTGATGAAATTGGCTGAAGGAAGATGCAAG
upper sequence: Vv06s0004g06920.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA11G27410.1 (Glycine max), 3'ss of exon 16
gtaagttattttatgtcagatattgtgatgcatgtgcctaatcctttcattttaaatta----ttctaattggattgtagGTTGGAATATTCGATGCCACAAACAGTACCAGGAAACGAAGGAATATGCTGATGAAAATGGCTGAGGGAAATTGCAAG
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gtaagatcattcttgttggatatttttgttactttgatgtgttctttcatgttattttgcatgttttaatttctatttagGTTGGGATATTTGATGCCACAAACAGTAGCAAAGAACGAAGAAACATGCTGATGAAATTGGCTGAAGGAAGATGCAAG
upper sequence: Vv06s0004g06920.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA11G27870.1 (Glycine max), 3'ss of exon 11
gtaagttattttatgtcagatattgt-gatgc----atgtgcctaatcctttcattttaaatta-ttctaattggattgtagGTTGGAATATTCGATGCCACAAACAGTACCAGGAAACGAAGGAATATGCTGATGAAAATGGCTGAGGGAAATTGCAAG
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gtaagatcattcttgttggatatttttgttactttgatgtgttctttcatgttattttgcataagttttaatttctatttagGTTGGGATATTTGATGCCACAAACAGTAGCAAAGAACGAAGAAACATGCTGATGAAATTGGCTGAAGGAAGATGCAAG
upper sequence: Vv06s0004g06920.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA14G37520.3 (Glycine max), 3'ss of exon 10
gtaagttattttatgtcagatattgtgatgcatgtgcctaatcctt--tcattttaaatta--ttctaattggattgtagGTTGGAATATTCGATGCCACAAACAGTACCAGGAAACGAAGGAATATGCTGATGAAAATGGCTGAGGGAAATTGCAAG
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gtaaattcattcttttagataactttgttacttaagccttctttcaaattttttcaacttaagttttaatttggatatagGTTGGGATATTTGATGCCACAAACAGTAGCAAGCAGCGAAGAAACATGCTGATGAAATTGGCTGAAGGTAGATGCAAG
upper sequence: Vv06s0004g06920.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA02G39390.1 (Glycine max), 3'ss of exon 10
----gtaagttattttatgtcagatattg---tgatgcatgtgcctaatcctttcattttaaatta--ttctaattggattgtagGTTGGAATATTCGATGCCACAAACAGTACCAGGAAACGAAGGAATATGCTGATGAAAATGGCTGAGGGAAATTGCAAG
| || ||||| | | | || | | || | || ||| | |||| ||| || ||||| | | |||||||| ||||| |||||||||||||||| || | | ||||| || |||||||||||| ||||||| || | ||||||
gtaaattcattcttttagataacttttttactttaagccttctttcaagttttttttcttaacttaagttttaatttggatttagGTTGGGATATTTGATGCCACAAACAGTAGCAAGCAGCGAAGAAACATGCTGATGAAATTGGCTGAAGGTAGATGCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgtgatgcatgtgcctaatcctttcattttaaattattctaattggattgtagGTTGGAATATTCGATGCCACAAACAGTACCAGGAAACGAAGGAATATGCTGATGAAAATGGCTGAGGGAAATTGCAAG
ttctaat putative branch site (score: 2)
taatcctttcatttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttattttatgtcagatattgtgatgcatgtgcctaatcctttcattttaaattattctaattggattgtagGTTGGAATATTCGATGCCACAAACAGTACCAGGAAACGAAGGAATATGCTGATGAAAATGGCTGAGGGAAATTGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT