RnoINT0070585 @ rn6
Intron Retention
Gene
ENSRNOG00000009572 | Hgfac
Description
HGF activator [Source:RGD Symbol;Acc:70909]
Coordinates
chr14:80972126-80972491:-
Coord C1 exon
chr14:80972395-80972491
Coord A exon
chr14:80972206-80972394
Coord C2 exon
chr14:80972126-80972205
Length
189 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
CTTCCGACTCGCCCCTCCAGGTG
3' ss Score
11.22
Exon sequences
Seq C1 exon
TGCTCACCGAGTCCGGACAGCCGTGCAGGTTCCCTTTCCGCTATGGTGGCCGCATGCTGCACTCCTGTTCCTCTGAGGGAAGTGCCTACAGGAAGTG
Seq A exon
GTGAGTCCCAGAGTGGGGTAAGGGGCTGAGGAATCCACATGGGTTCCCACTGTAGACCCTGACGAGCCCTGAAGCTGGTAGGTCTCAGTACCCAGCAGGTGCATCTAGTGAACAAGTGCTCCATTGTACCGAGGCAGAGAGGGGTGGGGCTCTGGGCAGGCACTTTCATCTTCCGACTCGCCCCTCCAG
Seq C2 exon
GTGTGCTACGACACACAACTACGACAGAGACCGGGCCTGGGGCTACTGTGCAGAGGCCACCCTGCCTGTGGAAGGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009572:ENSRNOT00000013257:3
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:
PF0004014=fn2=PU(58.5=72.7)
A:
NA
C2:
PF0004014=fn2=PD(39.0=57.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACAGCCGTGCAGGTTCC
R:
CCTTCCACAGGCAGGGTG
Band lengths:
157-346
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]