RnoALTD0002287-2/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000000853 | Aif1
Description
allograft inflammatory factor 1 [Source:RGD Symbol;Acc:61924]
Coordinates
chr20:5163730-5166466:-
Coord C1 exon
chr20:5166366-5166466
Coord A exon
chr20:5166307-5166365
Coord C2 exon
chr20:5163730-5163864
Length
59 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGCC
5' ss Score
7.58
3' ss Seq
GAAGTTTCTTTACTTTCCAGGGC
3' ss Score
8.1
Exon sequences
Seq C1 exon
AGTTGTTCAAGGCCATCGTCAGCCCTGTATGGCTTTCCCATCACAGGTCATTTGAGAGCTGGCCTGTGGGCTACTGACAGAAAGAAACCTTAGCCCAGCAG
Seq A exon
GTACCTCAGGAGGACTGCTGGCCTTAGGGGAAGTTGGGCCACTGTGACCTCATGAAAAG
Seq C2 exon
GGCCCTGGGCTCAGCTCACCCCATTCTTGGAGCAGCCTGCAGACTTCAGACTCTCTCTTCCCTACGGGAGAAAGTCAGCCAGTCCTCCTCAGCTGCTTGTCTTAACCTGCACCATGAAGCCTGAGGAAATTTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000853-0-2,1-2-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.125
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
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
(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:
GGTCATTTGAGAGCTGGCCTG
R:
CTGAGGAGGACTGGCTGACTT
Band lengths:
148-207
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]