Sequence
atgc intronic sequence ATGC exonic sequencegtctgttaaatagttatccgaaaactgtctgttctctctgtgctctctctctctctctctctctcacacacacacacacacacacctggatttgatgtgcatgtaaatttcaagcagagacattatttttctcttatttagGCAATTGATGCAAGAGATGTGATGGCGAAATTCATATATGCAAGCTTATTTGATTGGATTGTAGTACAAATCAACAAATCTCTTGAAGTGGGCAAACGAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0014g03640.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA13G35790.1 (Glycine max), 3'ss of exon 14
gtctgttaaatagttatccgaaaactgtctgttctctctgtgctctctctctctctctctctctcacacacacacacacacacacctggatttgatgtgcatgtaaatttcaagcagagacattatttttctcttatttagGCAATTGATGCAAGAGATGTGATGGCGAAATTCATATATGCAAGCTTATTTGATTGGATTGTAGTACAAATCAACAAATCTCTTGAAGTGGGCAAACGAC
|| | | | || | | ||| | ||| | |||| | | | || | || | || | || || ||| ||| || | | || ||||||||||||||||||||| | || ||||| || ||||||||||| ||||||||| |||||| |||| | || || || ||||||||||| ||||| |
---------------gtctgtctattacttgaacaattcaattgatctagttttctatttctcctaattgtat-----tatactattatatattat-tatatccaattttt--------------tttatcccatgttcagGCAATTGATGCAAGAGATGCATTAGCAAAATTTATCTATGCAAGCTTGTTTGATTGGCTTGTAGAACAAGTTAATAAGTCACTTGAAGTGGGTAAACGCC
upper sequence: Vv19s0014g03640.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA12G34780.1 (Glycine max), 3'ss of exon 15
gtctgttaaatagttatccgaaaactgtctgttctctctgtgctctctctctctctctctctctcacacacacacacacacacacctggatttgatgtgcatgtaaatttcaagcagagacattatttttctcttatttagGCAATTGATGCAAGAGATGTGATGGCGAAATTCATATATGCAAGCTTATTTGATTGGATTGTAGTACAAATCAACAAATCTCTTGAAGTGGGCAAACGAC
||| ||| | || ||| | | | |||| | |||| | | | | || | ||| | | |||||||||||||||||||||||| | || ||||| || ||||||||||| |||| |||| |||||| |||| | || || || ||||||||||| ||||| |
------------------------------------------------gtctgtctattacttgaacaattcagttgatctagttttctatttctcctaattgtattatattattatatccaatttttaatccatgtttagGCAATTGATGCAAGAGATGCATTAGCAAAATTTATCTATGCAAGCTTGTTTGGTTGGCTTGTAGAACAAGTTAATAAGTCACTTGAAGTGGGTAAACGCC
upper sequence: Vv19s0014g03640.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA12G22300.1 (Glycine max), 3'ss of exon 13
gtctgttaaatagttatccgaaaactgtctgttctctctgtgctctctctctctctctctctctcacacacacacacacacacacctggatttgatgtgcatgtaaatttcaagcagagacattatttttctcttatttagGCAATTGATGCAAGAGATGTGATGGCGAAATTCATATATGCAAGCTTATTTGATTGGATTGTAGTACAAATCAACAAATCTCTTGAAGTGGGCAAACGAC
||| || || | | |||| |||||| | ||| | ||| ||| |||| | || |||| || | || | ||||||| || |||||||| || || |||||||| ||||||||||| ||||| ||| |||||| |||| | ||||| || ||||||||||| |||| |
---------------------tggttgtatggtcattggtcaagaatcaagattatctc-ctctcatgttctcacttg-atgcac-----tttcatgtatgtttatctttctcaca-------------ttctttgtgcagGCAATCGAAAGAAGAGATGCAATTGCAAAATTCATCTATGCAAGCTTGTTTGACTGGCTTGTAGAACAAGTTAACAAGTCACTTGAAGTGGGTAAACAAT
upper sequence: Vv19s0014g03640.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA06G39740.1 (Glycine max), 3'ss of exon 13
gtctgttaaatagttatccgaaaactgtctgttctctctgtgctctctctctctctctctctctcacacacacacacacacacacctggatttgatgtgcatgtaaatttcaagcagagacattatttttctcttatttagGCAATTGATGCAAGAGATGTGATGGCGAAATTCATATATGCAAGCTTATTTGATTGGATTGTAGTACAAATCAACAAATCTCTTGAAGTGGGCAAACGAC
|| || || | || | | | | ||| | ||| || | | | |||||| ||| ||||||||| || |||||| ||| |||||||| || || |||||||| ||||||||||| ||||| ||| |||||| |||| | ||||| || ||||||||||| |||| ||
--------------------------------atggtcattggtcacgactcaagaatcaagattagctcctcttacattctcacttgatgt--actttcatgtatgtttatctttctcacattattt-------gttcagGCAACTGAAAGAAGAGATGCAATTGCAAAATTCATCTATGCAAGCTTGTTTGACTGGCTTGTAGAACAAGTTAACAAGTCACTTGAAGTGGGTAAACCAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggatttgatgtgcatgtaaatttcaagcagagacattatttttctcttatttagGCAATTGATGCAAGAGATGTGATGGCGAAATTCATATATGCAAGCTTATTTGATTGGATTGTAGTACAAATCAACAAATCTCTTGAAGTGGGCAAACGAC
atttgat putative branch site (score: 5)
ttatttttctcttatt putative PPT
acattatttttctctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctgttaaatagttatccgaaaactgtctgttctctctgtgctctctctctctctctctctctcacacacacacacacacacacctggatttgatgtgcatgtaaatttcaagcagagacattatttttctcttatttagGCAATTGATGCAAGAGATGTGATGGCGAAATTCATATATGCAAGCTTATTTGATTGGATTGTAGTACAAATCAACAAATCTCTTGAAGTGGGCAAACGAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG