Sequence
atgc intronic sequence ATGC exonic sequence...actagttgaatataaaagtgaaccattattctttacagtgcaactatatttatttcctttctgcttatcggagtttgttctatttgtattccttgtgcagGAAATTAAGGGAGATAGGCATCTACACCCTTCAAATATAGGCGAGTTATTTTCAGAAGGCTCTCTTAATCCATATGCAGATGATCCTTATGCATTTGATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g05600.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA13G01840.1 (Glycine max), 3'ss of exon 17
actagttgaatataaaagtgaaccattattctttacagtgcaactatatttatttcctttctgcttatcggagtttgttctatttgta--ttccttgtgcagGAAATTAAGGGAGATAGGCATCTACACCCTTCAAATATAGGCGAGTTATTTTCAGAAGGCTCTCTTAATCCATATGCAGATGATCCTTATGCATTTGATT
| | || | ||| ||||| || || || | | | | | | || ||| | | |||| | | || ||||| || || |||| | |||| || |||| ||| || || || || ||||||||||| |||||||||||||||||||| ||||| ||||||||||||
aatggt--gacatataagtgtttttgcatatgctatgctgttttctggtgtgctgcaataatactctatatgatttttcttttttgcacatcactgatgcagAGCATCAAAGGAGGAGGCCATCCTCATCCTTTAAACATTGGTGATTTGTTTTCAGAAGGGTCTCTTAATCCATATGCAGAGGATCCCTATGCATTTGAT-
upper sequence: Vv18s0001g05600.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA13G07980.1 (Glycine max), 3'ss of exon 10
------actagttgaatataaaagtgaaccattattctttacagtgcaactatatttatttcctttctgcttatcggagtttgttctatttgtattccttgtgcagGAAATTAAGGGAGATAGGCATCTACACCCTTCAAATATAGGCGAGTTATTTTCAGAAGGCTCTCTTAATCCATATGCAGATGATCCTTATGCATTTGATT--
| ||| | | | | || || || || || || || | || || | || || ||| || | | || || ||||| || || |||| | |||| || |||||||| || || || || |||| |||||| |||||||||||||||||||| ||||| |||||||||||||
ccatacttttgttaatggtgacatataagtgtttttgcatatgctgtg-ctgtagtaatactctatatgatt-------tttcttttttgcacatcactgatgcagagCATCAAAGGAGGAGGCCATCCTCATCCTTCAAACATTGGTGATTTGTTTTTAGAAGGGTCTCTTAATCCATATGCAGAGGATCCCTATGCATTTGATTAG
upper sequence: Vv18s0001g05600.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA14G34810.1 (Glycine max), 3'ss of exon 17
-----actagttgaatataaaagtgaaccattattctttacagtgcaactatatttatttcctttctgct-tatcggagtttgttctatt-tgtattccttgtgcagGAAATTAAGGGAGATAGGCATCTACACCCTTCAAATATAGGCGAGTTATTTTCAGAAGGCTCTCTTAATCCATATGCAGATGATCCTTATGCATTTGATT
||| ||| ||| | | | || || ||| | ||| | || | | |||| || || || |||| ||| | ||||| || || |||| | |||| | ||||||||||| || || || ||||||||||| ||||||||||||||||| || ||||| |||||||
tacatactt-ttgtttatggtaacatataagagtttttgcatatgctattatgctgtttcctggtgtgctgtagtaatactttttatattacatatcacagATGCAGAGCATCAAAGGAGGAGGCCATCCTCGTCCTTCAAATATTGGTGATTTGTTTTCAGAAGGGTCTCTTAATCCATATGCGGACGATCCCTATGCAT------
upper sequence: Vv18s0001g05600.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: AT1G22260.1 (Arabidopsis thaliana), 3'ss of exon 17
actagttgaatataaaagtgaaccattattctttacagtgcaactatatttatttcctttctgcttatcggagtttgttctatttgtattcc---ttgtgcagGAAATTAAGGGAGATAGGCATCTACACCCTTCAAATATAGGCGAGTTATTTTCAGAAGGCTCTCTTAATCCATATGCAGATGATCCTTATGCATTTGATT
| | || || || | | | | |||| | ||| || | || | | |||||| | ||| | || |||||| | || ||| | | || ||||||| || || || ||||||||||| ||||| || |||||||| |||||||| |||||||||||||
---tccggcacttagaaatgtagaaatttgttttaagtcaagaagttatggatgctgctgctaggttctaaaacgtgttctgagttaattgcatattatgcagGGCACAGGAATGACGAGTCATGCTCGCTCTGCAAATATTGGAGACTTGTTTTCAGAAGGTTCTCTCAACCCATATGCTGATGATCCCTATGCATTTGATT
upper sequence: Vv18s0001g05600.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: AT1G22275.1 (Arabidopsis thaliana), 3'ss of exon 17
actagttgaatataaaagt----gaaccatta--ttctttacagtgcaactatatttatttcctttctgcttatcggagtttgttctatttgtattccttgtgcagGAAATTAAGGGAGATAGGCATCTACACCCTTCAAATATAGGCGAGTTATTTTCAGAAGGCTCTCTTAATCCATATGCAGATGATCCTTATGCATTTGATT
| ||| || |||| ||| | || | | ||| | | | | | |||||| || | | | || | | || || | |||||||| | |||| ||| || ||||||| || || || ||||||||||| || || || |||||||| |||||||| |||||||||||||
-----tataatgtagaagttttcaggccaagaagttatggatgatgctaggtttctaaaaacatttctgatt-taactgcatattattctggtcttttaagcgcagGAAACAGCAATGGCCGATCATCCTCACTCTGCAAATATTGGAGACTTGTTTTCAGAAGGTTCCCTCAACCCATATGCTGATGATCCCTATGCATTTGATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatttatttcctttctgcttatcggagtttgttctatttgtattccttgtgcagGAAATTAAGGGAGATAGGCATCTACACCCTTCAAATATAGGCGAGTTATTTTCAGAAGGCTCTCTTAATCCATATGCAGATGATCCTTATGCATTTGATT
tattcctt CT-rich tract
tatttgtatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
actagttgaatataaaagtgaaccattattctttacagtgcaactatatttatttcctttctgcttatcggagtttgttctatttgtattccttgtgcagGAAATTAAGGGAGATAGGCATCTACACCCTTCAAATATAGGCGAGTTATTTTCAGAAGGCTCTCTTAATCCATATGCAGATGATCCTTATGCATTTGATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - -ataaaag
- - - - - - - - - tgaacca
- - - - - - - - - - - - - - - - - - - -gcaacta