RnoEX0073028 @ rn6
Exon Skipping
Gene
ENSRNOG00000030712 | RT1-A2
Description
RT1 class Ia, locus A2 [Source:RGD Symbol;Acc:1595923]
Coordinates
chr20:5377360-5377939:+
Coord C1 exon
chr20:5377360-5377488
Coord A exon
chr20:5377665-5377694
Coord C2 exon
chr20:5377892-5377939
Length
30 bp
Sequences
Splice sites
3' ss Seq
CACAGCTTTTCTTCTCACAGGTG
3' ss Score
9.69
5' ss Seq
CAGGTTAGT
5' ss Score
8.02
Exon sequences
Seq C1 exon
AGCCTTCTCCATCGACCAACTCCAACATGGAAACCACTGTCATTTATGTCGTCCTTGGAGCCATCATTGGAACTCTGGCCATCATTGGAATTGTAGTGGCTGTTGTGAGGAAGAGGAGGAGAAACACAG
Seq A exon
GTGGGAAAGGTGACTACACCCCTGCTCCAG
Seq C2 exon
GCAGGGACAGCTCCCAGAGCTCTGATGTGTCTCTCCCAGATTGTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000030712-'7-8,'7-7,8-8
Average complexity
C1
Mappability confidence:
88%=75=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.205 A=1.000 C2=0.882
Domain overlap (PFAM):
C1:
PF066236=MHC_I_C=PU(7.1=4.5)
A:
PF066236=MHC_I_C=FE(35.7=100)
C2:
PF066236=MHC_I_C=PD(53.6=88.2)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
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:
CGTCCTTGGAGCCATCATTGG
R:
AGACACATCAGAGCTCTGGGA
Band lengths:
112-142
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]