RnoINT0070582 @ rn6
Intron Retention
Gene
ENSRNOG00000009572 | Hgfac
Description
HGF activator [Source:RGD Symbol;Acc:70909]
Coordinates
chr14:80967901-80968281:-
Coord C1 exon
chr14:80968141-80968281
Coord A exon
chr14:80968050-80968140
Coord C2 exon
chr14:80967901-80968049
Length
91 bp
Sequences
Splice sites
5' ss Seq
AGAGTGAGT
5' ss Score
7.36
3' ss Seq
GAAAGTGCAGTACTCCACAGATG
3' ss Score
-0.41
Exon sequences
Seq C1 exon
TCTTGATCCGGCTGAAGAAGAAGGGGGAGCGCTGTGCTGTCCGCTCCCAGTTCGTTCAGCCCATCTGCCTCCCTGAGGCAGGCAGCTCTTTCCCTACAGGACACAAGTGTCAGATTGCAGGCTGGGGTCACATGGACGAGA
Seq A exon
GTGAGTTGAAGGCAGTCCCCACCACGGGTGGCCAGGGATGGGGAAAGACAGGCAATAAACCTGCCTCTCCTGAAAGTGCAGTACTCCACAG
Seq C2 exon
ATGTGAGTGGATATTCCAACTCCCTGCTGGAGGCACTGGTCCCCCTGGTTGCTGACCACAAGTGCAGCAGCCCTGAGGTGTATGGTGCCGACATCAGCCCCAACATGCTCTGTGCTGGATACTTTGACTGCAAGTCTGATGCCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009572:ENSRNOT00000013257:12
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:
PF0008921=Trypsin=FE(20.1=100)
A:
NA
C2:
PF0008921=Trypsin=FE(20.9=100)
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:
GGCAGCTCTTTCCCTACAGGA
R:
GAGCATGTTGGGGCTGATGTC
Band lengths:
171-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]