HsaINT0075918 @ hg19
Intron Retention
Gene
ENSG00000109758 | HGFAC
Description
HGF activator [Source:HGNC Symbol;Acc:4894]
Coordinates
chr4:3446992-3448021:+
Coord C1 exon
chr4:3446992-3447077
Coord A exon
chr4:3447078-3447768
Coord C2 exon
chr4:3447769-3448021
Length
691 bp
Sequences
Splice sites
5' ss Seq
GCGGTGCGC
5' ss Score
6.63
3' ss Seq
CCGGTGACCTTTGCTCCCAGAAT
3' ss Score
7
Exon sequences
Seq C1 exon
GAATCCGGACAATGACGAGAGGCCCTGGTGCTACGTGGTGAAGGACAGCGCGCTCTCCTGGGAGTACTGCCGCCTGGAGGCCTGCG
Seq A exon
GTGCGCGGCTGGCGGGGGGTGCTGCCTTGGGCCCCACCGAGGTCACAGCAGTTTTCCCCGTGATCCTCCTAGCCCCTCCGCACACCTGGCTACTGCATCTCTGACAAATGGGGAAACTGGAGCTCACGGGATCAGGCTGGTCCAAGGTCACGCAGTGGGTCGGTACTGGGGTCACAGTGGGGAAGCAGCCCGCTGCAGGGGGCTGGTCACCAGGCGACGGCCTCGGGGTGGCACCTGCCCAGCCTGGACCATGCCCAGGATGGCCGCAGAAGCCTTTCAGGGAGGTGCAGGGAGGGCAGCGTGCAGGCCCCCCAGAGGCCACCTGCTTCCTGCCCTGGGGAGAGGCCCCCCGGCTCCCTAGGACCCCGGCGGGGCCAGCCCGGGGCTCTCATGTGGGGGTCTCTGACTGTGCTGGGGCTGGCTGTGGGGTTCCGGGCTGCTGAGGGGGCCACAAAGGCCTCCGTGTGTCCAGCCCCTCTGGCCCTCACAGAGCCTCGGGATCGGGCATCAAACCCCATTCTACAGATTTGGAAACTGAGGGCAGAGGTGAGTGGGCGCCAGGGCCTGAGCAGCGTGGACAGGGGGTCCGGCCATGGCCCTCTGCAGCGCCTCCTGCCGGGTAGGGCCTGTGTGTGGAAGGGGGCTGGCCCTGTGAACCCCAGGGGTGTGACCCGGTGACCTTTGCTCCCAG
Seq C2 exon
AATCCCTCACCAGAGTCCAACTGTCACCGGATCTCCTGGCGACCCTGCCTGAGCCAGCCTCCCCGGGGCGCCAGGCCTGCGGCAGGAGGCACAAGAAGAGGACGTTCCTGCGGCCACGTATCATCGGCGGCTCCTCCTCGCTGCCCGGCTCGCACCCCTGGCTGGCCGCCATCTACATCGGGGACAGCTTCTGCGCCGGGAGCCTGGTCCACACCTGCTGGGTGGTGTCGGCCGCCCACTGCTTCTCCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000109758-HGFAC:NM_001528:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.024
Domain overlap (PFAM):
C1:
PF0005113=Kringle=PD(34.1=93.3)
A:
NA
C2:
PF0008921=Trypsin=PU(18.8=51.8)
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATCCGGACAATGACGAGAGG
R:
CTGTGGGAGAAGCAGTGGG
Band lengths:
338-1029
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)