Sequence
atgc intronic sequence ATGC exonic sequence...tttatccataaaatctatcatgtttactgttctttttgaaaatcaatacttattttatttatgtgctttgtatgttgtcatttgtctttgaccatttcagGAATTTCATCTTTCACAAACTTATCATGAAGGACTTCGTAAATTACAAGCTAAAGAATATGAGAAGGCTCGAGAACTTTTAGAAGCTGTCCTCAAAGATC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g00560.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA04G09220.1 (Glycine max), 3'ss of exon 3
-------------------------------------------------tttatccataaaatctatcatgtttactgttctttttgaaaatcaatacttattttat-------ttatgtgctttgtatg-------ttgtcatttgtctttgaccatttcagGAATTTCATCTTTCACAAACTTATCATGAAGGACTTCGTAAATTACAAGCTAAAGAATATGAGAAGGCTCGAGAACTTTTAGAAGCTGTCCTCAAAGATC
| | | | || || | ||| | || ||||| || | ||| | || || |||| | | || || || ||| | || ||||||||||||||||||||| |||||||||||||||||||||| || |||||||| ||||| |||||||||||||| || || |||||| ||||||| |||||||
gtacaaagattaggactcttgatactcttaatagctctgttaattcatatatgtatgtgctattgattctttttttttttttttttaaatcttaattcaaatgctacattaccattattggttccacataatttttcttttcttttcttttctgttatttcagGAATTTCATCTTTCCCAAACTTATCATGAAGGACTTCTCAAGTTACAAGCAAAAGAGTATGAGAAGGCTCGCGAGCTCTTAGAATCTGTCCTTAAAGATC
upper sequence: Vv04s0008g00560.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA06G09350.1 (Glycine max), 3'ss of exon 2
----tttatccataaaatctatcatgtttactgttctttttgaaaatcaatacttattttatttatgtgctttgtatgttgtcatttgtctttgaccatttcagGAATTTCATCTTTCACAAACTTATCATGAAGGACTTCGTAAATTACAAGCTAAAGAATATGAGAAGGCTCGAGAACTTTTAGAAGCTGTCCTCAAAGATC
||| | |||| ||| | || | || | || || | || | |||| | | | | | ||| || ||| | || ||||||||||||||||||||| ||||||||||| ||||| |||| || |||||| | ||||| ||||||| |||||| || || |||||| ||||||| |||||||
tttttttttttttaaatcctaattcaagtgcta--cattaccattattgattcc-atataatttttcttttcttttcgtt-tcttttcttttctgttatttcagGAATTTCATCTTTCTCAAACTTATCACGAAGGGCTTCTCAAGTTACAAACAAAAGAGTATGAGATGGCTCGTGAGCTCTTAGAATCTGTCCTTAAAGATC
upper sequence: Vv04s0008g00560.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G32820.2 (Arabidopsis thaliana), 3'ss of exon 2
--------tttatccataaaatctatcatgtttactgttctttttgaaaatcaat--acttattttatttatgtgctttgta-tgttgtcatttgtct-ttgaccatttcagGAATTTCATCTTTCACAAACTTATCATGAAGGACTTCGTAAATTACAAGCTAAAGAATATGAGAAGGCTCGAGAACTTTTAGAAGCTGTCCTCAAAGATC
| || || ||| || | | | | | ||| | || || ||| | | | ||| | |||| | ||| | ||| || ||||||| |||||||| |||||||| |||||||| || |||| || | ||||||||||| ||||| |||||||| || || ||||| || |||| |||||||
gttttcttctgattcagggcttctttcttctcaatttggtataaagaagttagattagctcattgttgaaaaatatattgaactgtttttttttttaaattgccctcttcagGAGTTTCATCTGTCACAAACATATCATGATGGTCTTCTCAAGCTGCAAGCTAAAGACTATGACAAGGCTCGGGAGCTGCTAGAATCTATCCTTAAAGATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atacttattttatttatgtgctttgtatgttgtcatttgtctttgaccatttcagGAATTTCATCTTTCACAAACTTATCATGAAGGACTTCGTAAATTACAAGCTAAAGAATATGAGAAGGCTCGAGAACTTTTAGAAGCTGTCCTCAAAGATC
ctttgac putative branch site (score: 4)
ccatttc CT-rich tract
tattttatttatgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttatccataaaatctatcatgtttactgttctttttgaaaatcaatacttattttatttatgtgctttgtatgttgtcatttgtctttgaccatttcagGAATTTCATCTTTCACAAACTTATCATGAAGGACTTCGTAAATTACAAGCTAAAGAATATGAGAAGGCTCGAGAACTTTTAGAAGCTGTCCTCAAAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - -ccataaa
- - - - - - - - -tcatgtt
- - - - - - - - - - - - - - - - - - - -aaatcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tatgtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtatgt