RnoINT0070588 @ rn6
Intron Retention
Gene
ENSRNOG00000009572 | Hgfac
Description
HGF activator [Source:RGD Symbol;Acc:70909]
Coordinates
chr14:80970888-80971306:-
Coord C1 exon
chr14:80971175-80971306
Coord A exon
chr14:80970999-80971174
Coord C2 exon
chr14:80970888-80970998
Length
176 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGT
5' ss Score
10.65
3' ss Seq
GCTTCCATACTCTCCCCTAGCTT
3' ss Score
5.94
Exon sequences
Seq C1 exon
AGAAGTGCTTTGATGAAACACGCTACGAGTATTTTGAGGTGGGCGACCACTGGGCCCGTGTGAGCGAGGGACATGTGGAGCAGTGCAGCTGTATCGAGGGGCAGGCCCGGTGTGAAGACACCCACCACACAG
Seq A exon
GTACGTCATGGCCAACTTCAGGGAGGTTCCATGGTGCATGGGGTAGTGAGACATGTCCTTAGACACTTCTCACTCAAGCATAAGGTTACCCAACAACAGCGACATGGGGAAAGAGTTCAGCTCCGTCCCCTCCATGATTCCTGGAGACCAAGTATAGCTTCCATACTCTCCCCTAG
Seq C2 exon
CTTGCCTGAGCAGCCCATGTCTGAATGGAGGAACCTGCCACCTGATTGTGGGCACAGGGACCAGCATCTGCGCCTGCCCGTTGGGTTATGCTGGGCGGTTCTGCAACATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009572:ENSRNOT00000013257:6
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:
PF0003913=fn1=WD(100=80.0)
A:
NA
C2:
PF0000822=EGF=WD(100=86.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Cow
(bosTau6)
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:
AGAAGTGCTTTGATGAAACACGC
R:
AATGTTGCAGAACCGCCCAG
Band lengths:
242-418
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]