RnoINT0058136 @ rn6
Intron Retention
Gene
ENSRNOG00000010019 | Fam166a
Description
family with sequence similarity 166, member A [Source:RGD Symbol;Acc:1562762]
Coordinates
chr3:2440193-2440837:+
Coord C1 exon
chr3:2440193-2440319
Coord A exon
chr3:2440320-2440742
Coord C2 exon
chr3:2440743-2440837
Length
423 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
TAGCATCCACTTAACCCCAGGTT
3' ss Score
4.4
Exon sequences
Seq C1 exon
CTATACCACTGCAGGAGGGACGAGTACCTGCCTCCACATCCCCCACAGGAGACACTAGATGTGGGCAGATACCAGCGACTGCCCCAGCTAGACCACCCCAACCTAATCCAACGCAAGGCCATCTCAG
Seq A exon
GTAAGCATTGGGTACCTAAGCTGTTCTCCATAATGTTCCAAGGGTCCAGACAAGATAACTGGGGGTTTACTACCTGGGACCCCTCCTACACAGAGAACAGGTGAGTCTCTCATGTTTAACACTTTATCTTAAACCAGCCCAGCTACTCCCAAAGAGGTGGTGGTGGTTTTTCTGAGACAGGGTTAGTGTGTACCCCTGGCTGGCTTGTAACTCCTCTGTAGACCAGGATATCCTCAAACTCAGATATCCACCTGCCTCTGCCTCCTGAGTGCTGGGATTAAAGGTGTGCACCACCACAGCCTGGCTCAACCTTTAGGTATGTAATGGACTTCACAGATGAAATTTCAGGGATAAAGGGCATTTCTGACACACCTGGGAGTGTGTAGAAGATGTGCCCTAACCGTAGCATCCACTTAACCCCAG
Seq C2 exon
GTTATGCTGGCTTTGTTCCCCGGTTTGCCTGGGTAATGGGGATGAATTATCGTGATGGAGTCATACAAGCGATGGATGACTTTGACAAGAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010019:ENSRNOT00000013335:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.453 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
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:
CTATACCACTGCAGGAGGGAC
R:
CTGGTTCTTGTCAAAGTCATCCA
Band lengths:
222-645
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]