RnoEX0073050 @ rn6
Exon Skipping
Gene
ENSRNOG00000030431 | RT1-Db2
Description
RT1 class II, locus Db2 [Source:RGD Symbol;Acc:1595922]
Coordinates
chr20:4106189-4117207:+
Coord C1 exon
chr20:4106189-4106288
Coord A exon
chr20:4115460-4115562
Coord C2 exon
chr20:4116941-4117207
Length
103 bp
Sequences
Splice sites
3' ss Seq
CCATTTCATTGGTCCCATAGACG
3' ss Score
6.9
5' ss Seq
GAGGTAATT
5' ss Score
8.88
Exon sequences
Seq C1 exon
ATGGTGTGTCTGTGGCTCCCCAGAGACCCCTGTGTGGCGGCTGTGGTCCTGAGTCTGTTAATGCTGAGTCCTCCCGTGGCTTTGGTCAGGGACCCCCGAC
Seq A exon
ACGCTGCTTCCACAATAGCAAGGGGAATTCCACTGTCTATAGTTTGCTTCTGCTTTGGAAATCAAGTCTTTGAAGAGGCTGGGATCCCCATGACACCTATGAG
Seq C2 exon
CACGTTTTCTGGAGCAGTTGAAGGCTGAGTGTCACTACGTCAAGGGGAGGGAGCATGTGTGGAGCGTGACCAGATTCATCTATAACCAGGAAGAGTTTGCCCGCTTTGACAGTGTCTTTGGGAAGTTCCTGGCAGTGACTGAGCTGGGGCGGCCCATAGCTGAGTACTTGAACACCCAGAAGGACATGCTGGACAATTACCGTGCCTCTGTGGACAGGTGCAGAAATAACTATGACCTGGTTGATATCTTCATGTCGAACTTAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000030431_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
PF0096914=MHC_II_beta=WD(100=82.2)
Main Inclusion Isoform:
ENSRNOT00000042571fB11962
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
(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:
TAATGCTGAGTCCTCCCGTGG
R:
GGCACGGTAATTGTCCAGCAT
Band lengths:
248-351
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]