RnoINT0155645 @ rn6
Intron Retention
Gene
ENSRNOG00000022598 | Trerf1
Description
transcriptional regulating factor 1 [Source:RGD Symbol;Acc:1307167]
Coordinates
chr9:15687041-15687412:-
Coord C1 exon
chr9:15687273-15687412
Coord A exon
chr9:15687145-15687272
Coord C2 exon
chr9:15687041-15687144
Length
128 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTG
5' ss Score
8.56
3' ss Seq
TGATTTCTTACTCTCAACAGTGG
3' ss Score
7.07
Exon sequences
Seq C1 exon
ACGCATCAACATTGGCTTAAGATTCCAAGCAGAGATCCCAGAACTGCAAGACGTCTCCGCCATGGCTCAGGACACACACAAGGCCACACTGGTATGGAAGCCGTGGCCTGAGCTAGAAAACCAGGCCCTCCAGCAACAAG
Seq A exon
GTACTGGCACTTAGGAGGAGCTGGGAGGGTGAGGCTGGCTTCTCTAGCAGGGACGTTGGGCTCCAGAATGGGTGTGGGTTTTTGTGACACTGGACATATCTGATACAGTGATTTCTTACTCTCAACAG
Seq C2 exon
TGGAGAACCTTCTGAATTTGTGTTGTTCCAGCGCGCTGCCAGGTGGAGGGACCAATTCGGAATTTGCTTTGCACTCTCTCTTTGAGGCCAAAGGTGACGTGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000022598:ENSRNOT00000035907:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.021 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0144819=ELM2=PU(78.9=93.8)
A:
NA
C2:
PF0144819=ELM2=PD(19.3=31.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGCATCAACATTGGCTTAAGA
R:
CATCACGTCACCTTTGGCCTC
Band lengths:
244-372
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]