HsaINT0075912 @ hg19
Intron Retention
Gene
ENSG00000109758 | HGFAC
Description
HGF activator [Source:HGNC Symbol;Acc:4894]
Coordinates
chr4:3444777-3445147:+
Coord C1 exon
chr4:3444777-3444873
Coord A exon
chr4:3444874-3445067
Coord C2 exon
chr4:3445068-3445147
Length
194 bp
Sequences
Splice sites
5' ss Seq
GTGGTGGGT
5' ss Score
4.29
3' ss Seq
ACGCAGGTGTCGCCCCCCAGGTG
3' ss Score
6.44
Exon sequences
Seq C1 exon
CACTCACCGAGGACGGGAGGCCCTGCAGGTTCCCCTTCCGCTACGGGGGCCGCATGCTGCATGCCTGCACTTCGGAGGGCAGTGCACACAGGAAGTG
Seq A exon
GTGGGTCCGGGCAGCCGGGGCACCCGAGCTGGGGTCACCTGCCCCACGCTGCCTGCTTTTCTGGGAGCCGGGCACACAGTAGGCGCTCACCACGCAGCAGGCGGACCCAGTGAACCCAGAGACCCTCCAGGGTGGTGGGGTGGGGTGGGGGGCCTCTGCCTGGGACCCCCATGCACGCAGGTGTCGCCCCCCAG
Seq C2 exon
GTGTGCCACAACTCACAACTACGACCGGGACAGGGCCTGGGGCTACTGTGTGGAGGCCACCCCGCCTCCAGGGGGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000109758-HGFAC:NM_001528:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.121 A=NA C2=0.036
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
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGGCCCTGCAGGTTCC
R:
CCTCCACACAGTAGCCCCAG
Band lengths:
138-332
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)