Sequence
atgc intronic sequence ATGC exonic sequence...ggtcttgatctaaattttctgatctatttcttgtttttatgcatactaagcttgttatattttcaggcttgcagttgttaaacccaacatttttttgcagGCAGTTCATGTTGCTGCTCAATATGGACAAACAGCTTTCATAAATCACCTTGTTGCAAAGTACCATGCAGATTTTGATGCACCGGATAGAGATGGGAGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0088g01260.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os11g34860.2 (Oryza sativa), 3'ss of exon 2
ggtcttgatctaa-attttctgatctatttcttgtttttatgcatactaa-gcttgttatattttcaggcttgcagttgttaaacccaacatttttttgcagGCAGTTCATGTTGCTGCTCAATATGGACAAACAGCTTTCATAAATCACCTTGTTGCAAAGTACCATGCAGATTTTGATGCACCGGATAGAGATGGGAGAA
|| || ||| || | ||||| | | |||| | | || | || | || || || | || || || | | || | | ||||||||||||||||| ||||| |||||||||||||| ||| | | ||| || | |||||||| |||||| ||||| ||| | |||||||| |
-tgctggagataatataaccccgtctatctatatttttagcgttttgtagtgtgagtgaaatcttatggttcacatttctttgtttcgatcattatgt-cagGCAGTTCATGTTGCAGCTCAGTATGGACAAACAGCATTCTTGCACCACATTATCTCAAAGTACGGTGCAGACTTTGAGTGTTTGGACAATGATGGGAGGA
upper sequence: Vv03s0088g01260.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA07G30380.1 (Glycine max), 3'ss of exon 2
ggtcttgatctaaattttctgatctatttcttgtttttatgcatactaagcttgtt---atattttcaggcttgca--gttgttaaacccaacatttttttgcagGCAGTTCATGTTGCTGCTCAATATGGACAAACAGCTTTCATAAATCACCTTGTTGCAAAGTACCATGCAGATTTTGATGCACCGGATAGAGATGGGAGAA
| || || | | | || | || || ||| ||| | | |||| || ||| ||| ||| || | | | || || |||||||||||||||||||||| ||||||||||| |||||||| ||||||| |||| | |||||||||||| |||||||||| || |||| ||||| | |
--acctgttccta-tataaggaaaaccctggacttattctgcttacca--cctgtttaaatgtttccagttttgtgctattttcatagttaaatggttcctgcagGCAGTTCATGTTGCTGCACAATATGGACAGGCAGCTTTCTTAAATCATATTGTAGTAAAGTACCATGCTGATTTTGATGTGCCTGATAATGATGGATGGA
upper sequence: Vv03s0088g01260.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G06860.1 (Glycine max), 3'ss of exon 2
ggtcttgatctaaattttctgatctatttcttgtttttatgcatactaa-gcttgtt---atattttcaggcttgca--gttgttaaacccaacatttttttgcagGCAGTTCATGTTGCTGCTCAATATGGACAAACAGCTTTCATAAATCACCTTGTTGCAAAGTACCATGCAGATTTTGATGCACCGGATAGAGATGGGAGAA
| || || | | | | | | || |||| | ||| | |||| || ||||| | |||| || | | | || || |||||||||||||||||||||| |||| |||||| ||||||||| ||||||| |||| | |||||||||||| |||||||||| || |||| ||||| || |
--acctgttcc----tctataaggaaaaccctgaacttattctgcctaccacctgtttaaatgttttctgtcttgtgctattttcatagttaaatggttcctgcagGCAGTTCATGTTGCTGCACAATTTGGACAGACAGCTTTCTTAAATCATATTGTAGTAAAGTACCATGCTGATTTTGATGTGCCTGATAATGATGGAAGGA
upper sequence: Vv03s0088g01260.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT2G14255.1 (Arabidopsis thaliana), 3'ss of exon 2
-----------------------------------------------------------ggtcttga--tctaaattttctgatctatttcttgtttttatgcatactaagcttgttatattttcaggcttgcagttgttaaacccaacatttttttg--cagGCAGTTCATGTTGCTGCTCAATATGGACAAACAGCTTTCATAAATCACCTTGTTGCAAAGTACCATGCAGATTTTGATGCACCGGATAGAGATGGGAGAA
| || || | ||| |||| || ||| | | || || || |||| || || | | || || | | || | |||| ||| |||||||||||||||||| ||||||||||||||||||| ||| | ||||| || ||| | || || || | | | |||| |||| || ||||| |
gtaatatcttctttctgttgtaatttttgtgtttttgtttgctaaaggtgtgtgaaatggatcaggagttataagttttgcatcaggcttgttgctgctgtg-atcataggcttcagattcttgtaagatttt-gtcgatctacgacatgttttgttgtgcagGCAGTTCATGTTGCTTCTCAATATGGACAAACAGCATTCGTGAATCATATTATTGTGGACTATGCAGCTGACTATAACGCACTAGATATTGAAGGGAGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctaagcttgttatattttcaggcttgcagttgttaaacccaacatttttttgcagGCAGTTCATGTTGCTGCTCAATATGGACAAACAGCTTTCATAAATCACCTTGTTGCAAAGTACCATGCAGATTTTGATGCACCGGATAGAGATGGGAGAA
cattttttt CT-rich tract
ttgttatattttca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggtcttgatctaaattttctgatctatttcttgtttttatgcatactaagcttgttatattttcaggcttgcagttgttaaacccaacatttttttgcagGCAGTTCATGTTGCTGCTCAATATGGACAAACAGCTTTCATAAATCACCTTGTTGCAAAGTACCATGCAGATTTTGATGCACCGGATAGAGATGGGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - gcatact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcttgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaccca