HsaINT0075909 @ hg19
Intron Retention
Gene
ENSG00000109758 | HGFAC
Description
HGF activator [Source:HGNC Symbol;Acc:4894]
Coordinates
chr4:3449622-3450003:+
Coord C1 exon
chr4:3449622-3449762
Coord A exon
chr4:3449763-3449854
Coord C2 exon
chr4:3449855-3450003
Length
92 bp
Sequences
Splice sites
5' ss Seq
AGAGTGAGT
5' ss Score
7.36
3' ss Seq
GAGGGCATTGTGTCCCACAGACG
3' ss Score
5.95
Exon sequences
Seq C1 exon
TCCTGATCCGGCTGAAGAAGAAAGGGGACCGCTGTGCCACACGCTCGCAGTTCGTGCAGCCCATCTGCCTGCCCGAGCCCGGCAGCACCTTCCCCGCAGGACACAAGTGCCAGATTGCGGGCTGGGGCCACTTGGATGAGA
Seq A exon
GTGAGTTGGGAGGGGGGCGCCCAGCGCCCCGCCAGGGTGGACAGTGGCCAGCCACAGTGTGGGTGTCACGCTGAGGGCATTGTGTCCCACAG
Seq C2 exon
ACGTGAGCGGCTACTCCAGCTCCCTGCGGGAGGCCCTGGTCCCCCTGGTCGCCGACCACAAGTGCAGCAGCCCTGAGGTCTACGGCGCCGACATCAGCCCCAACATGCTCTGTGCCGGCTACTTCGACTGCAAGTCCGACGCCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000109758-HGFAC:NM_001528:12
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:
PF0008921=Trypsin=FE(20.1=100)
A:
NA
C2:
PF0008921=Trypsin=FE(20.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGACACAAGTGCCAGATTGC
R:
GACTTGCAGTCGAAGTAGCCG
Band lengths:
180-272
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)