RnoINT0058135 @ rn6
Intron Retention
Gene
ENSRNOG00000010019 | Fam166a
Description
family with sequence similarity 166, member A [Source:RGD Symbol;Acc:1562762]
Coordinates
chr3:2439848-2440319:+
Coord C1 exon
chr3:2439848-2440113
Coord A exon
chr3:2440114-2440192
Coord C2 exon
chr3:2440193-2440319
Length
79 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACT
5' ss Score
8.63
3' ss Seq
TTTGCACTTCCCTGTCCCAGCTA
3' ss Score
6.17
Exon sequences
Seq C1 exon
ATCTGAAACCCTACAAGAATTTCGAGATTCTGGGCAAGCTCCCACGCCAGGAGGTGGACACCCAGGGGATGCCACAGGGAGAGAACATATCCAGACATGTTCCACTACCTGCGGGCTTCATGCCTTATCCCCCCTACCCACCATGCCCTCCAGGCAGAAAGGGGGAAGCTAGAGACCTGGGCCATCCAGGTCTACTGCTGGCATATGGGGAAGAGGCTTGGAAGAATGCAGCACCTCTTCAGGAGACCCCAGGGAGGTACCACCAG
Seq A exon
GTAACTGGAGACACTCTGGCCTGAGGTTCCCTCCCCAGGTGGTAGCTATGTAGTAGTAATTTGCACTTCCCTGTCCCAG
Seq C2 exon
CTATACCACTGCAGGAGGGACGAGTACCTGCCTCCACATCCCCCACAGGAGACACTAGATGTGGGCAGATACCAGCGACTGCCCCAGCTAGACCACCCCAACCTAATCCAACGCAAGGCCATCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010019:ENSRNOT00000013335:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.427 A=NA C2=0.453
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAGGCTTGGAAGAATGCAGC
R:
ATGGCCTTGCGTTGGATTAGG
Band lengths:
177-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]