RnoINT0058134 @ rn6
Intron Retention
Gene
ENSRNOG00000010019 | Fam166a
Description
family with sequence similarity 166, member A [Source:RGD Symbol;Acc:1562762]
Coordinates
chr3:2439535-2440113:+
Coord C1 exon
chr3:2439535-2439749
Coord A exon
chr3:2439750-2439847
Coord C2 exon
chr3:2439848-2440113
Length
98 bp
Sequences
Splice sites
5' ss Seq
CCAGTGAGC
5' ss Score
4.44
3' ss Seq
GGGCTACCCTGTCTGTACAGATC
3' ss Score
6.86
Exon sequences
Seq C1 exon
CTATGCTGGTTTCTATCCTCAACTGCGCTACCAGGTGGGAAACACCTATGGCCGCACTACTGCACAGTTGCTCACAGATCCCAGTGTACAGAAGAGCCCCTGCTCTGTTCTGTCACCTATGTCCAAGCCCAAGTTCATTGAGGACTTCAGCAAATCCAAGCCACCATGGATGCCCTGCAGGGACCTGACAGAGCCTTACATCCCCCACTATACCA
Seq A exon
GTGAGCTTCATGTCAAGGGTGGGGTCCCACCTCGCTCTGCCTCCATTGGGGCTCCACCCTCCTTCCTACATGGCTCAAGGGCTACCCTGTCTGTACAG
Seq C2 exon
ATCTGAAACCCTACAAGAATTTCGAGATTCTGGGCAAGCTCCCACGCCAGGAGGTGGACACCCAGGGGATGCCACAGGGAGAGAACATATCCAGACATGTTCCACTACCTGCGGGCTTCATGCCTTATCCCCCCTACCCACCATGCCCTCCAGGCAGAAAGGGGGAAGCTAGAGACCTGGGCCATCCAGGTCTACTGCTGGCATATGGGGAAGAGGCTTGGAAGAATGCAGCACCTCTTCAGGAGACCCCAGGGAGGTACCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010019:ENSRNOT00000013335:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.164 A=NA C2=0.427
Domain overlap (PFAM):
C1:
PF106294=DUF2475=PD(89.6=82.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCCAGTGTACAGAAGAGCCC
R:
GAGCTTGCCCAGAATCTCGAA
Band lengths:
178-276
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]