RnoINT0015558 @ rn6
Intron Retention
Gene
ENSRNOG00000000853 | Aif1
Description
allograft inflammatory factor 1 [Source:RGD Symbol;Acc:61924]
Coordinates
chr20:5162908-5163247:-
Coord C1 exon
chr20:5163127-5163247
Coord A exon
chr20:5162970-5163126
Coord C2 exon
chr20:5162908-5162969
Length
157 bp
Sequences
Splice sites
5' ss Seq
AGGGTAGGG
5' ss Score
5.76
3' ss Seq
TTAACCTCTGTACCCCTCAGGAG
3' ss Score
8.03
Exon sequences
Seq C1 exon
AGAAGGGACTGGGGAGCTGGTGGAGAGAGGAGCCAGCCAACACACTGCAGCCTCATCGTCATCTCCCCACCTAAGGCCACCAGCGTCTGAGGAGCTATGAGCCAGAGCAAGGATTTGCAGG
Seq A exon
GTAGGGAAGGTGGACCGTACAGCACCAGGAGCCAGCATGAGTCAGGGAGCCAGAGGGCTGCTGGAGAATCTCAGAGGGCAGCCCTTGGGCAACACTTGGGCTGGGCACAGGGGAGGAGGAAAGGGAGGGAGGGGTGGTTAACCTCTGTACCCCTCAG
Seq C2 exon
GAGGAAAAGCTTTTGGACTGCTGAAAGCCCAACAGGAAGAGAGGTTGGATGGGATCAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000853:ENSRNOT00000001135:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.222 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134991=EF-hand_7=PU(10.9=47.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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:
AGAAGGGACTGGGGAGCTG
R:
TGTTGATCCCATCCAACCTCTCT
Band lengths:
181-338
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]