HsaINT0075914 @ hg19
Intron Retention
Gene
ENSG00000109758 | HGFAC
Description
HGF activator [Source:HGNC Symbol;Acc:4894]
Coordinates
chr4:3445766-3446169:+
Coord C1 exon
chr4:3445766-3445888
Coord A exon
chr4:3445889-3446037
Coord C2 exon
chr4:3446038-3446169
Length
149 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
GCTTACTGTGCACCCCTCAGAGA
3' ss Score
5.13
Exon sequences
Seq C1 exon
CTGCCCTGGATCCCTGTGCCTCCGGCCCCTGCCTCAATGGAGGCTCCTGCTCCAATACCCAGGACCCCCAGTCCTATCACTGCAGCTGCCCCCGGGCCTTCACCGGCAAGGACTGCGGCACAG
Seq A exon
GTGAGCTGGGCCTCGGAGGTCCGCAGGGGTCCAGGGGCCGGAGCAAGTCCCCGGAGGATGGGAGAACAGGTGGCTCCCGAGTGCAGGGCAGGGGCCCTGCACGGGGACAGCAGGTGGCAGGGTGTGAGGGCTTACTGTGCACCCCTCAG
Seq C2 exon
AGAAATGCTTTGATGAGACCCGCTACGAGTACCTGGAGGGGGGCGACCGCTGGGCCCGCGTGCGCCAGGGCCACGTGGAACAGTGCGAGTGCTTCGGGGGCCGGACCTGGTGCGAAGGCACCCGACATACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000109758-HGFAC:NM_001528:5
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=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=WD(100=78.6)
A:
NA
C2:
PF0003913=fn1=WD(100=80.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGGATCCCTGTGCCTCC
R:
CTGTATGTCGGGTGCCTTCG
Band lengths:
251-400
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)