RnoALTA0032565-1/2 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000031090 | RT1-CE7
Description
RT1 class I, locus CE7 [Source:RGD Symbol;Acc:1595786]
Coordinates
chr20:4698167-4698718:-
Coord C1 exon
chr20:4698640-4698718
Coord A exon
NA
Coord C2 exon
chr20:4698167-4698324
Length
0 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
GAGTTCGTGCGCTTCGACAGCGA
3' ss Score
2.98
Exon sequences
Seq C1 exon
TCTCAGATGGGGTCAAGGGCACCTCACACTCTGCTTCTGCTGCTGGCGGCCGCCCTGGCCCGGACCCAGCCCCGCGCGG
Seq A exon
NA
Seq C2 exon
CGACGCGGAGAATCCGAGATACGAGCCGCGGGCGCCGTGGATGGAGCGGGAGGGGCTGGAGTATTGGGAGCAGCAGACACGGAGAGCCAAGGGCAACCAGCAGACTTTCCAAGTGAACCTGAGGACCGCGCTCCACTACTACAACCAGAGCGAGGACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000031090-3-9,3-8-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence exclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.165
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(0.1=0.0)
A:
NA
C2:
PF0012913=MHC_I=PU(50.3=98.9)
Main Inclusion 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:
TCTCAGATGGGGTCAAGGGC
R:
GGTCCTCGCTCTGGTTGTAGT
Band lengths:
237-349
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]