RnoEX0048092 @ rn6
Exon Skipping
Gene
ENSRNOG00000048951 | LOC100364500
Description
RT1 class I, locus CE11-like [Source:RGD Symbol;Acc:2320860]
Coordinates
chr20:2704663-2705415:-
Coord C1 exon
chr20:2705140-2705415
Coord A exon
chr20:2704872-2705012
Coord C2 exon
chr20:2704663-2704695
Length
141 bp
Sequences
Splice sites
3' ss Seq
CCTGTTCCTGTCCTTCCCAGAGG
3' ss Score
10.19
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
Exon sequences
Seq C1 exon
ATCCCCCAAAGGCACATGTGACCCTTCACCCCAGACCTGAAGGTGATGTCACCCTGAGGTGCTGGGCCCTGGGCTTCTACCCTGCTGACATCACCCTGACCTGGCAGTTGAATGGGGAGGACCTGACCCAGGACATGGAGCTTGTGGAGACCAGGCCTGCAGGGGATGGAACCTTCCAGAAGTGGGCAGCTGTGGTGGTGCCTCTTGGGAAGGAGCAGAATTACACATGCCTTGTGGAGCATGAGGGGCTGCCTGAGCCTCTCACCCTGAGATGGG
Seq A exon
AGGCTCCTCCAGGCACTGACTCCAACATGGAAACCAAAGTTATTTATGTTGTCCTTGGAGCTGTGGCCATGATTGGAGCTGTGGCCGTGATTGGAGCTGTGGTGGCTGTTGTGAGGAGGAGGAGGAGGAAGAGAAACACAG
Seq C2 exon
GTGGAACAGGAGGAGACTACGCCCCTGCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000048951-'5-5,'5-2,6-5
Average complexity
S
Mappability confidence:
89%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.226 A=0.167 C2=1.000
Domain overlap (PFAM):
C1:
PF0765410=C1-set=WD(100=93.5),PF0248011=Herpes_gE=PU(25.5=26.9)
A:
PF0248011=Herpes_gE=FE(48.0=100),PF066236=MHC_I_C=PU(6.9=4.2)
C2:
PF0248011=Herpes_gE=FE(11.2=100),PF066236=MHC_I_C=FE(37.9=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGAGGTGCTGGGCCCTG
R:
GCGTAGTCTCCTCCTGTTCCA
Band lengths:
245-386
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]