HsaINT0075917 @ hg38
Intron Retention
Gene
ENSG00000109758 | HGFAC
Description
HGF activator [Source:HGNC Symbol;Acc:HGNC:4894]
Coordinates
chr4:3444819-3445350:+
Coord C1 exon
chr4:3444819-3444993
Coord A exon
chr4:3444994-3445264
Coord C2 exon
chr4:3445265-3445350
Length
271 bp
Sequences
Splice sites
5' ss Seq
CCGGTCAGC
5' ss Score
4.61
3' ss Seq
CCCCCACTTATGCACCGCAGGAA
3' ss Score
7.49
Exon sequences
Seq C1 exon
AGCCTGATGAGCGCTGCTTCTTGGGGAACGGCACTGGGTACCGTGGCGTGGCCAGCACCTCAGCCTCGGGCCTCAGCTGCCTGGCCTGGAACTCCGATCTGCTCTACCAGGAGCTGCACGTGGACTCCGTGGGCGCCGCGGCCCTGCTGGGCCTGGGCCCCCATGCCTACTGCCG
Seq A exon
GTCAGCACCACGCCGCTCCAGGCCGCCGCATGCGGGGCAGGCAGGATTTGTCCTGGGGAGAGGCCCCCCGGCTCCCTAGGACCCAGGCGGGGCCAGCTCCGTCCAGACAGGCCCCGGAACCTCTGCCTGGGAGGCTGCCCGAGGGAGGGCCACTCTCTTCCCACTGCTCCAGGTGCGGGGAACCGCCCTGCTGGGGGTTCCGATGCCCCCTCCCCATGCCCTCTTCGAGGGGCAGTGTGACTCCCTGCCAGCCCCCACTTATGCACCGCAG
Seq C2 exon
GAATCCGGACAATGACGAGAGGCCCTGGTGCTACGTGGTGAAGGACAGCGCGCTCTCCTGGGAGTACTGCCGCCTGGAGGCCTGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000109758:ENST00000382774:8
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
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGATGAGCGCTGCTTCTTGG
R:
CCTCCAGGCGGCAGTACT
Band lengths:
252-523
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