RnoINT0070590 @ rn6
Intron Retention
Gene
ENSRNOG00000009572 | Hgfac
Description
HGF activator [Source:RGD Symbol;Acc:70909]
Coordinates
chr14:80970307-80970791:-
Coord C1 exon
chr14:80970617-80970791
Coord A exon
chr14:80970393-80970616
Coord C2 exon
chr14:80970307-80970392
Length
224 bp
Sequences
Splice sites
5' ss Seq
CCGGTCAGC
5' ss Score
4.61
3' ss Seq
ACTCCCTTGTCTGCCTCCAGGAA
3' ss Score
11.35
Exon sequences
Seq C1 exon
TTCCCACTGAGCGCTGCTTCCTGGGCAATGGAACAGAGTACCGCGGTGTGGCCAGCACCTCTGCCTCGGGCCTGAGCTGCCTGGCCTGGAATTCCGACCTGCTCTACCAGGAGCTCCATGTAGACTCAGTGGGTGCTGCTGCCCTGCTTGGCCTGGGCCCTCATGCTTACTGCCG
Seq A exon
GTCAGCATCTAATGGCTACCATATCTCTTTCTGCGTAGGCAAAGGATTGGACACAGTGGCTCCCCAGACTTAGCAGGGGCCAACACTGCCAAGATGGTTGTTAGCCTCTGCCTCTTGGGATGGTGGGTTCAAGGGTGCCCATCATGGTCTAGCTCAGGTGTTGGTGTGGGCGTTAGGATGGTCCTCTCGGGAGACTGATGTGTGACTCCCTTGTCTGCCTCCAG
Seq C2 exon
GAACCCAGACAAGGACGAGAGGCCTTGGTGCTATGTGGTGAAGGACAGCGCGCTGTCATGGGAGTATTGTCGCCTGGCAGCTTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009572:ENSRNOT00000013257:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005113=Kringle=PU(64.6=89.8)
A:
NA
C2:
PF0005113=Kringle=PD(34.1=93.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCCCACTGAGCGCTGCTT
R:
ACAAGCTGCCAGGCGACAATA
Band lengths:
260-484
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]