Sequence
atgc intronic sequence ATGC exonic sequencegtaaggttttcacaagccatacattaaaagcttatggttgttaaattctggcttttgtgttagcttaactttttcctttagctgtgctttgaatagctcagcctatgaagtcagttgagtgatgatatattgcaaattcagGTTGAAATTGAAGGGTTTGTATATGTATTGTGGTGGATTCTACACATACTCCATATTTGCTTTGATTTTTTGGGAAACAAGGCGGTCTGATTTTGGAGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0010g01110.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os02g37080.2 (Oryza sativa), 3'ss of exon 2
gtaaggttttcacaagccatacattaaaagcttatggttgttaaattctggcttttgtgttagcttaactttttcctttagctgtgctttgaatagctcagcctatgaagtcagttgagtgatgatatattgcaaattcagGTTGAAATTGAAGGGTTTGTATATGTATTGTGGTGGATTCTACACATACTCCATATTTGCTTTGATTTTTTGGGAAACAAGGCGGTCTGATTTTGGAGTG
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-----------------------------------------------------gtaatacgaattggtcctttattgcttcatgttcttactagttctcaggct--ggtgtatatctaacaattttcccct-tatctacagATGGAAACTTAAGGCTGTCTATATGTATGCTGCTGGATTCTACACATATTCCATATTTGCACTTATGTTTTGGGAAACAAGGCGTTCAGATTTTGGCGTG
upper sequence: Vv01s0010g01110.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G170868_T01 (Zea mays), 3'ss of exon 2
gtaaggttttcacaagccatacattaaaagcttatggttgttaaattctggcttttgtgttagcttaactttttcctttagctgtgctttgaatagctcagcctatgaagtcagttgagtgatgatatattgcaaattcagGTTGAAATTGAAGGGTTTGTATATGTATTGTGGTGGATTCTACACATACTCCATATTTGCTTTGATTTTTTGGGAAACAAGGCGGTCTGATTTTGGAGTG
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-----------------------------------------gtaattctgatccttccactgt----actttttaataaaaattctcactggtt--ttcaatctgctc--tagatctaatggttgtgccct-tactctcagATTGAAACTTAAGGCTGTATATATGTATGCTGCTGGATTCTACACATATTCCATATTTGCACTTATGTTTTGGGAAACAAGGCGTTCAGACTTTGGAGTG
upper sequence: Vv01s0010g01110.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G444643_T01 (Zea mays), 3'ss of exon 3
gtaaggttttcacaagccatacattaaaagcttatggttgttaaattctggcttttgtgttagcttaactttttcctttagctgtgctttgaatagctcagcctatgaagtcagttgagtgatgatatattgcaaattcagGTTGAAATTGAAGGGTTTGTATATGTATTGTGGTGGATTCTACACATACTCCATATTTGCTTTGATTTTTTGGGAAACAAGGCGGTCTGATTTTGGAGTG
| | || | | | ||| ||| | ||| ||||| || | | | | | || | | | | |||| |||||| | |||| | | ||||||||| || ||||||||||||||| ||||||||||| | || ||||||||||||||||| || || |||||||||
-----------------------------------------------gtaattcttatccttccactgtactttttgatagaaattcttaatgcttctcaggct--ggtataaatctaatggttgcaccct-tactctcagATTGAAACTTAAGGCTGTATATATGTATGCTGCTGGATTCTACACATATTCCATATTTGCACTTATGTTTTGGGAAACAAGGCGTTCAGACTTTGGAGTG
upper sequence: Vv01s0010g01110.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G36370.1 (Glycine max), 3'ss of exon 2
gtaaggttttcacaagccatacattaaaagcttatggttgttaaattctggcttttgtgttagcttaactttttcctttagctgtgctttgaatagctcagcctatgaagtcagttgagtgatgatatattgcaaattcagGTTGAAATTGAAGGGTTTGTATATGTATTGTGGTGGATTCTACACATACTCCATATTTGCTTTGATTTTTTGGGAAACAAGGCGGTCTGATTTTGGAGTG
|| | | | || || | ||| || |||| || || || | | ||||| | | | | || | | ||| | | | | | ||| |||||| ||||||||||||||| | |||||||| || |||||| ||| |||||||||| ||||||||||| ||||||||||| ||||| || || |||||||||
------------------attcttgatcagttttta-ttgccgaactctgaatta---gtcag---agccgtttccaacaagagggttaagacaaa--------aagaaataacctt--ttaacatacattgca------gGTTGAAATTGAAGGCAGTCTATATGTACGCTGCTGGATTTTACTCATACTCCATTTTTGCTTTGATATTTTGGGAAACGAGGCGCTCCGACTTTGGAGTG
upper sequence: Vv01s0010g01110.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA16G12080.1 (Glycine max), 3'ss of exon 2
gtaaggttttcacaagccatacattaaaagcttatggttgttaaattctggcttttgtgttagcttaactttttcctttagctgtgctttgaatagctcagcctatgaagtcagttgagtgatgatatattgcaaatt-cagGTTGAAATTGAAGGGTTTGTATATGTATTGTGGTGGATTCTACACATACTCCATATTTGCTTTGATTTTTTGGGAAACAAGGCGGTCTGATTTTGGAGTG
| || || | | || ||| | |||| || ||||| | | || | | | | || | ||| |||||||||||| |||| | |||||||| || |||||| ||| |||||||||| |||||||| || ||||||||||| ||||| || ||||||||||||
----------------------------------------------------gtaagtatttctccacatgcctcacttatgaatcatttgttctttcca---tatgattttaattta-taaccttttaacatacatttcagGTTGAAATTAAAGGCAGTCTATATGTACGCTGCTGGATTTTACTCATACTCCATTTTTGCTTTAATATTTTGGGAAACGAGGCGCTCCGATTTTGGAGTG
upper sequence: Vv01s0010g01110.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G13580.2 (Arabidopsis thaliana), 3'ss of exon 2
gtaaggttttcacaagccatacattaaaagcttatggttgttaaattctggcttttgtgttagcttaactttttcctttagctgtgctttgaatagctcagcctatgaagtcagttgagtgatg-atatat-tgcaaattcagGTTGAAATTGAAGGGTTTGTATATGTATTGTGG-TGGATTCTACACATACTCCATATTTGCTTTGATTTTTTGGGAAACAAGGCGGTCTGATTTTGGAGTG
| ||||| ||| || || |||| | | |||| | | || | | |||| |||| | | || |||||| || |||||| ||||||||||| |||||| ||| ||||| ||||||||||| |||||| || |||| |||||||| ||||| ||||||||||||||
--------------------------------------------------gtaagagtgtt-gctcaaggccttactttg--tatataaagaattctcgattttgtgcttgct-ctacatgatatatatctactctcatgcagGTTAAAGTTGAAGCTTTTGTATATGT-TTGTGGCTGGTTTCTATACATACTCCATCTTTGCTCTGGTTTTCTGGGAAACGAGGCGTTCTGATTTTGGAGTT
upper sequence: Vv01s0010g01110.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT3G25540.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaaggttttcacaagccatacattaaaagcttatggttgttaaattctggcttttgtgttagcttaactttttcctttagctgtgctttgaatagctcagcctatgaa-gtcagttgagtgatgata-tattgcaaattcagGTTGAAATTGAAGGGTTTGTATATGTATTGTGGTGGATTCTACACATACTCCATATTTGCTTTGATTTTTTGGGAAACAAGGCGGTCTGATTTTGGAGTG
||| || || | ||| || | | || || || ||| | | | | |||||| | | | |||| |||| |||||| ||| ||||||| | || |||||||||||| ||||| ||||| || ||| | |||||||||||||| ||||||||||| |||||
----------------------------------------------------------------gtaagttgtttcgtta--tggtcatcga-tatcttttgtgatggtcatttgctaaaatatgatactgctatgtgtgcagGATGAAGTTGAAGTTTTTATATATGTTTGCTGCTGGATTCTACACGTACTCTATATTCGCGTTGGTGTTTTGGGAAACAAGACGGTCTGATTTCGGAGTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttgaatagctcagcctatgaagtcagttgagtgatgatatattgcaaattcagGTTGAAATTGAAGGGTTTGTATATGTATTGTGGTGGATTCTACACATACTCCATATTTGCTTTGATTTTTTGGGAAACAAGGCGGTCTGATTTTGGAGTG
atatattgcaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaggttttcacaagccatacattaaaagcttatggttgttaaattctggcttttgtgttagcttaactttttcctttagctgtgctttgaatagctcagcctatgaagtcagttgagtgatgatatattgcaaattcagGTTGAAATTGAAGGGTTTGTATATGTATTGTGGTGGATTCTACACATACTCCATATTTGCTTTGATTTTTTGGGAAACAAGGCGGTCTGATTTTGGAGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG