RnoEX0073034 @ rn6
Exon Skipping
Gene
ENSRNOG00000032708 | RT1-Bb
Description
RT1 class II, locus Bb [Source:RGD Symbol;Acc:3469]
Coordinates
chr20:4039413-4045498:+
Coord C1 exon
chr20:4039413-4039569
Coord A exon
chr20:4043085-4043185
Coord C2 exon
chr20:4045232-4045498
Length
101 bp
Sequences
Splice sites
3' ss Seq
CTTTGTCCTTGAAACTCTAGGCA
3' ss Score
7.14
5' ss Seq
TGGGTTGGT
5' ss Score
0.35
Exon sequences
Seq C1 exon
CCCCTAGTGCACTTCTGTGCTTCTCCCAGGCCTTCTTGGTGACTTAGTCTGCCGGAGACTGGTGATGTTGCCTCATACTCCCTCCTCATTGGCTGGATCAGAAACCAGCATCTGTAAAGCCTCTTTGTCATCGGATGTCTCTAGTTCAGCTTTCGTG
Seq A exon
GCAGCAGCATCTGGAAGCCCTGAAAGGCTATGGCATTTTCCTCAGCTGACGTCGTGTTTGCAGAGGATTTAACAGCAGAAGACTCCTTAGAGAACAGTTGG
Seq C2 exon
GGGATTTCGTATTCCAGTTCAAGGGCCTGTGCTACTACACCAACGGGACGCAGCGCATACGGCTCGTGATCAGATACATCTACAACCGGGAGGAGTACGTGCGCTTCGACAGCGACGTGGGCGAGTTCCGCGCGCTGACCGAGCTGGGGCGGCCCTCAGCCGAGTACTATAACAAACAGTACCTGGAGCGGACGCGGGCCGAGCTGGACACGGTCTGCAGACACAACTACGAGGAGACGGAGGTCCCCACCTCCCTGCGGCGGCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000032708_MULTIEX1-1/3=C1-3
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.054 A=0.000 C2=0.011
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
PF0096914=MHC_II_beta=WD(100=81.1)
Main Inclusion Isoform:
ENSRNOT00000082136fB11960
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:
CACTTCTGTGCTTCTCCCAGG
R:
ACGTACTCCTCCCGGTTGTAG
Band lengths:
248-349
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]