Sequence
atgc intronic sequence ATGC exonic sequencegtacgttttataaaaataatgttttgtgcctttgtttaaattatccattagtcttgcatattattttctatcacaagggatttcaaatactgaattaatggtttcaggattttgataatttaatttcaaaatgttataagcgtagatgtagtttctgttgtttatgtatttcttttccagGATTTTGCAGGAATACACTCAGCTAGAGAATTTGTTTGGTGGTATAATGGGCATCCAGACTGCAAAAACCTGGATCCTGATTTGAAGAGCACTGATACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g03550.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os02g17700.1 (Oryza sativa), 3'ss of exon 4
gtacgttttataaaaataatgttttgtgcctttgtttaaattatccattagtcttgcatattattttctatcacaagggatttcaaatactgaattaatggtttcaggattttgataatttaatttcaaaatgttataagcgtagatgtagtttctgttgtttatgt-atttcttttccagGATTTTGCAGGAATACACTCAGCTAGAGAATTTGTTTGGTGGTATAATGGGCATCCAGACTGCAAAAACCTGGATCCTGATTTGAAGAGCACTGATACAG
| |||| | | | | || | | | | | | |||||| | | | ||||| | || | || | | | | || | ||| || | | || ||||| | |||||||| || ||| |||| ||||| |||||||||||||| ||||||||| ||| ||| ||||| ||| | ||||| ||| | |
----------------------------------------------------------------------tggcaagat-tgtgtagtgct-atcaatttatcttatgattttcgttttgttttttca-----tcatgcgtgtgagt----tgtttattctcagtgtcatctttgttatagGATCTGAGGGGAATACATTCGGCTCGAGAGTTTGTGTGGTGGTATAATGGACATCCAGACATGTGCAACTTGGCACCTGACTTGCAAAGCACAGATTCTG
upper sequence: Vv11s0016g03550.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA14G40480.1 (Glycine max), 3'ss of exon 4
gtacgttttataaaaataatgttttgtgc-ctttgtttaaattatccattagtcttgcatattattttctatcacaagggatttcaaatactgaattaatggtttcaggattt-tgataatttaatttcaaaatgttataagcgtagatgtagtttctgttgtttatgtatttcttttc----cagGATTTTGCAGGAATACACTCAGCTAGAGAATTTGTTTGGTGGTATAATGGGCATCCAGACTGCAAAAACCTGGATCCTGATTTGAAGAGCACTGATACAG
||| | || | || || |||| | |||| | | | | ||| || || | | | | | | | || | || |||||| | | ||| |||| | | || | | | || | | ||||| || ||| |||| |||| | ||| | || ||| ||||| ||||||||||| ||||||||||||||||||||||| ||||| | ||| || || || || | ||||||||||||||||
---------gtaagcttgatttattaagcgcttttcgtgaatttgctagaatttttgttgtttcattggttttgcctgcggtgt-aagcaatggcttaatgttcttttattttgtgatggctatgcattaactgatagtttgagttactcttgtttcatttcttttaatattcctttccttctcagAACTTGAAAGGGATACATTCAGCTAGAGAGTTTGTTTGGTGGTATAATGGGCACCCAGATGGACGAAATCTTGAGCCAGACCTAAAGAGCACTGATACAG
upper sequence: Vv11s0016g03550.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G04100.1 (Glycine max), 3'ss of exon 4
gtacgttttataaaaataatgttttgtgc-ctttgtttaaattatccattagtcttgcatattatt--ttctatcacaagggatttcaaatactgaat---taatggtttcaggattttgataatttaatttcaaaatgttataagcgtagatgtagtttctgttgtttatgtatttcttttccagGATTTTGCAGGAATACACTCAGCTAGAGAATTTGTTTGGTGGTATAATGGGCATCCAGACTGCAAAAACCTGGATCCTGATTTGAAGAGCACTGATACAG
||| | || || || |||| | |||| | | | | ||| | | ||| || | | | | ||| ||| ||| || | ||| ||| || |||| | | | | | | | | | ||| | || | || |||| || ||| | || ||| ||||| ||||||||||| ||||||||||||||||||||||| ||| | | |||| || || || || | ||||||||||||||||
---------gtaagcttgattcattatgtgcttttcctgaatttgctagaatttttgtgtttcattggttttgcctgtggtgtaagcaatgacttaatgcttatttattttgtgatggctatgcattaactgatagttttagttactcttatttcaatttttcttaat-attcctttccttctcagAACTTGAAAGGGATACATTCAGCTAGAGAGTTTGTTTGGTGGTATAATGGGCACCCATATGGACAAAATCTTGAGCCAGACCTAAAGAGCACTGATACAG
upper sequence: Vv11s0016g03550.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA05G35620.1 (Glycine max), 3'ss of exon 4
gtacgttttataaaaataatgttttgtgc-ctttgtttaaattatccattagtcttgcatattattttctatcacaagggatttcaaatactgaattaatggtttcaggattt-tgataatttaatttcaaaatgttataagcgtagatgtagtttctgttgtttatgtatttcttttc----cagGATTTTGCAGGAATACACTCAGCTAGAGAATTTGTTTGGTGGTATAATGGGCATCCAGACTGCAAAAACCTGGATCCTGATTTGAAGAGCACTGATACAG
||| | || | || | |||| | |||| | | | | ||| || || | | | | | | | || | || |||||| | | ||| |||| | | || | | | || | | ||||| || ||| |||| |||| | ||| | || ||| ||||| ||||||||||| ||||||||||||||||||||||| || || | ||| || || || || | ||||| ||||||||||
---------gtaagcttgatttattaagtgcttttcctgaatttgctagaatttttgttgtttcattggttttgcctgcggtgt-aagcaatggcttaatgttcttttattttgtgatggctatgcattaactgatagtttgagttactcttgtttcatttcttttaatattcctttccttctcagAACTTGAAAGGGATACATTCAGCTAGAGAGTTTGTTTGGTGGTATAATGGGCACCCGGATGGACGAAATCTTGAGCCAGACCTAAAGAGTACTGATACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaaaatgttataagcgtagatgtagtttctgttgtttatgtatttcttttccagGATTTTGCAGGAATACACTCAGCTAGAGAATTTGTTTGGTGGTATAATGGGCATCCAGACTGCAAAAACCTGGATCCTGATTTGAAGAGCACTGATACAG
tgtatttcttttcc CT-rich tract
tttatgtatttctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgttttataaaaataatgttttgtgcctttgtttaaattatccattagtcttgcatattattttctatcacaagggatttcaaatactgaattaatggtttcaggattttgataatttaatttcaaaatgttataagcgtagatgtagtttctgttgtttatgtatttcttttccagGATTTTGCAGGAATACACTCAGCTAGAGAATTTGTTTGGTGGTATAATGGGCATCCAGACTGCAAAAACCTGGATCCTGATTTGAAGAGCACTGATACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA