RnoEX0073027 @ rn6
Exon Skipping
Gene
ENSRNOG00000038999 | RT1-A1
Description
RT1 class Ia, locus A1 [Source:RGD Symbol;Acc:1595924]
Coordinates
chr20:5417145-5418012:+
Coord C1 exon
chr20:5417145-5417174
Coord A exon
chr20:5417369-5417416
Coord C2 exon
chr20:5417552-5418012
Length
48 bp
Sequences
Splice sites
3' ss Seq
TACGTTTTGTTTTACCCTAGGCA
3' ss Score
9.67
5' ss Seq
AAGGTGACA
5' ss Score
5.19
Exon sequences
Seq C1 exon
GTGGGAAAGGAGTCTACACCCCTGCTCCAG
Seq A exon
GCACGGACAGCTCCCAGAGCTCTGATGTGTCTCTCCCAGATTGTAAAG
Seq C2 exon
CATGAAGACAGCTGCCTGGAGTGGACTGAGTGACAGACGATGTGTTCAGGTCTCTCCTGTGACATCCAGAGTCCTCAGTTCTCTTTAGACACCAGTGTCTGATGTTCCCTGTGATCTATGGCTTCAGTGTGAAGAACTGTGAAGCCCAGCCTGCCCTGCACTTCAGGACCCTGTCCCTGCACTGTCTGTGTTCCCTTCCACAGCCAACCTTGCTGGTCCAGCCTAGGAGTGGGGGTGGGGACATCTGCATCCTGTCACTCCCTGCTACCCTGAGCTTCTGCCCCTCATTTCCACATTGAGAATAAGAATCTGAGTGTGAACTTGATTGTTCACATCCTTGACACAAGTGTGGATGGCTTTTTAAATTGCTGGATGGAATACTTAGAGGTTTTTTGTTTTGGGGTTTTGCTTTGTTTGGTTTTGTTTTTGAAAAAAATAAAAGGCAGATGGAGAAGCTTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000038999_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=0.723 C2=0.000
Domain overlap (PFAM):
C1:
PF066236=MHC_I_C=FE(35.7=100)
A:
PF126692=P12=PD(23.6=76.5),PF066236=MHC_I_C=PD(50.0=88.2)
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
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:
AAGGAGTCTACACCCCTGCTC
R:
CAGGGAACATCAGACACTGGTG
Band lengths:
135-183
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]