Sequence
atgc intronic sequence ATGC exonic sequencegtaagccagttttccaaacatctaaggctcatatttagtgattaaatacagattttccacattgtggctactcaacaatgtcttaagtagcaataagagaggaggcaaacatttatagcttatctggccttgtgataatctgtgagttttccttgtaacagttttcacctttttctgtttcagATTCCAATTGATTGCTTTGAGGAACCGTGGGTTGTCTTTCGTGGGCAAGATGGGAAACCTGGATGTGTCCGTAACACCTGCGCCCATAGAGCATGCCCTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g02700.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA13G03430.1 (Glycine max), 3'ss of exon 4
gtaagccagttttccaaacatctaaggctcatatttagtgattaaatacagattttccacattgtggctactcaacaatgtcttaagtagcaataagagaggaggcaaacatttatagcttatctggccttgtgataatctgtgagttttccttgtaacagttttcacctttttctgtttcagATTCCAATTGATTGCTTTGAGGAACCGTGGGTTGTCTTTCGTGGGCAAGATGGGAAACCTGGATGTGTCCGTAACACCTGCGCCCATAGAGCATGCCCTC
| | | | | | ||| | | | | | ||| || | | | | || | || || ||| || || | |||||| | |||||| ||||| || || ||||||||||| |||||| ||||||| ||| |||||||||| ||||||||||| | |||||||| || |||||||| |||||||
------------------------------------------------------------------------------tatttaagggggtaat--ggggtgtcatatatgattaaagatagacatactcataagctaaatgcaaattctc---ataaatgtgttactccttttctatctcagATCCCAATAGAATGTTTTGAGGAACCATGGGTTATCTTTCGAGGGAAAGATGGGAAGCCTGGATGTGTGCAGAACACCTGTGCACATAGAGCCTGCCCTC
upper sequence: Vv18s0001g02700.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA06G11920.1 (Glycine max), 3'ss of exon 4
gtaagccagttttccaaacatctaaggctcatatttagtgattaaatacagattttccacattgtggctactcaacaatgtcttaagtagcaataagagaggaggcaaacatttatagcttatctggccttgtgataatctgtgagttt---tccttgtaacagttttcacctttttctgtttcagATTCCAATTGATTGCTTTGAGGAACCGTGGGTTGTCTTTCGTGGGCAAGATGGGAAACCTGGATGTGTCCGTAACACCTGCGCCCATAGAGCATGCCCTC
|| | || | | | | |||| | || || ||||| || | | | || ||| | || | | |||||| |||||||| ||||| || || ||||||||||| ||||| | ||||| ||| |||||||||| ||||||||||| | || |||||||| || |||||||||||||
--------------------------------------------------------------------------------------ccagataagagcccgtctgtggaaagttatggttttatacaagttactccaatctctggatgtaaattctcataagcatgttaatccttttctttttcagATCCCAATAGAATGTTTTGAGGAACCATGGGTCATTTTTCGAGGGAAAGATGGGAAGCCTGGATGTGTTCAAAATACCTGCGCACACAGAGCATGCCCTC
upper sequence: Vv18s0001g02700.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA04G42840.1 (Glycine max), 3'ss of exon 4
gtaagccagttttccaaacatctaaggctcatatttagtgattaaatacagattttccacattgtggctactcaacaatgtcttaagtagcaataagagaggaggcaaacatttatagcttatctggccttgtgataatctgtgagttttccttgtaacagttttcacctttttctgtttcagATTCCAATTGATTGCTTTGAGGAACCGTGGGTTGTCTTTCGTGGGCAAGATGGGAAACCTGGATGTGTCCGTAACACCTGCGCCCATAGAGCATGCCCTC
||| |||| | | | || | | || | | | || || ||| || ||| | || || | || | || | | |||||| |||||||| ||||| || || ||||||||||| ||||| |||| || ||| |||||||||| ||||| ||||| | |||||||| || || |||||||| ||||
----------------------------------------------------------------------------aatttcttggggtg-acggagttctgtgtcagata---agagactacctgtactccaatctggatgtaaattctctt---aagcatgttaatccttttctttttcagATCCCAATAGAATGTTTTGAGGAACCATGGGTCATCTTCCGAGGGAAAGATGGGAAGCCTGGGTGTGTTCAGAACACCTGTGCACACAGAGCATGTCCTC
upper sequence: Vv18s0001g02700.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA14G23860.1 (Glycine max), 3'ss of exon 4
gtaagccagttttccaaacatctaaggctcatatttagtgattaaatacagattttccacattgtggctactcaacaatgtcttaagtagcaataagagaggaggcaaacatttatagcttatctggccttgtgataatctgtgagttttccttgtaacagttttcacctttttctgtttcagATTCCAATTGATTGCTTTGAGGAACCGTGGGTTGTCTTTCGTGGGCAAGATGGGAAACCTGGATGTGTCCGTAACACCTGCGCCCATAGAGCATGCCCTC
| | | | ||| | | | | | | | || | | | | || | || || | || || | |||||| | | |||||| ||||| || || ||||||||||| |||||| |||| || ||| |||||||||| ||||||||||| | |||||||| || || |||| || ||||
-------------------------------------------------------------------------------atttaggggggtaat--ggggtgtcatatatgataaaagatagacatactcataagctaaatgcaaattctcata--aatgtgttactccttttcttatctcagATCCCAATAGAATGTTTTGAGGAACCATGGGTTATCTTCCGAGGGAAAGATGGGAAGCCTGGATGTGTGCAGAACACCTGTGCACACCGAGCCTGTCCTC
upper sequence: Vv18s0001g02700.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G44446.2 (Arabidopsis thaliana), 3'ss of exon 4
gtaagccagttttccaaacatctaaggctcatatttagtgattaaatacagattttccacattgtggctactcaacaatgtcttaagtagcaataagagaggaggcaaacatttatagcttatctggccttgtgataatctgtgagttttc--cttgtaacagttttcacctttttctgtttcagATTCCAATTGATTGCTTTGAGGAACCGTGGGTTGTCTTTCGTGGGCAAGATGGGAAACCTGGATGTGTCCGTAACACCTGCGCCCATAGAGCATGCCCTC
| | | | ||| || | | || | |||| ||| | | | | | ||| | || || | |||||||| |||||||| |||| |||||| ||||| | || |||| |||||||| |||||||| || || || || || ||||||||||| ||||
------------------------------------------------------------------------------------------------------gtatgtatagtggtt-cttgcttgatttaagcgtcttccattagttacaagcttctgagaaatgctattgtttatttcttaagGTACCAATTGAATGCTTTGAACAACCATGGGTTATCTTTAGGGGTGAAGACGGGAAACCAGGATGTGTACGGAATACATGTGCGCATAGAGCATGTCCTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttgtgataatctgtgagttttccttgtaacagttttcacctttttctgtttcagATTCCAATTGATTGCTTTGAGGAACCGTGGGTTGTCTTTCGTGGGCAAGATGGGAAACCTGGATGTGTCCGTAACACCTGCGCCCATAGAGCATGCCCTC
ttgtaac putative branch site (score: 2)
ttttcacctttttctg putative PPT
ataatct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagccagttttccaaacatctaaggctcatatttagtgattaaatacagattttccacattgtggctactcaacaatgtcttaagtagcaataagagaggaggcaaacatttatagcttatctggccttgtgataatctgtgagttttccttgtaacagttttcacctttttctgtttcagATTCCAATTGATTGCTTTGAGGAACCGTGGGTTGTCTTTCGTGGGCAAGATGGGAAACCTGGATGTGTCCGTAACACCTGCGCCCATAGAGCATGCCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA