HsaINT0075906 @ hg19
Intron Retention
Gene
ENSG00000109758 | HGFAC
Description
HGF activator [Source:HGNC Symbol;Acc:4894]
Coordinates
chr4:3443726-3444639:+
Coord C1 exon
chr4:3443726-3443845
Coord A exon
chr4:3443846-3444458
Coord C2 exon
chr4:3444459-3444639
Length
613 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGC
5' ss Score
5.97
3' ss Seq
ACCCTTTCTGCTCCTCCTAGAAC
3' ss Score
8.82
Exon sequences
Seq C1 exon
GCCATGGGGCGCTGGGCCTGGGTCCCCAGCCCCTGGCCCCCACCGGGGCTGGGCCCCTTCCTCCTCCTCCTCCTGCTGCTGCTGCTGCTGCCACGGGGGTTCCAGCCCCAGCCTGGCGGG
Seq A exon
GTGAGCACTGACCTTGTCGCAGTGCGACCAGAGGTTCCCAGTGGCTACTTGGGGTCCTTGGGAGGAGGCCAGAGGGAGGGTCGCCACAGAGCGTGGGGATTTGAGGGGGCGGGGGTCCGAGCAGGGGGCTTACGTTGAAAGCTGGCCCTCACAGGGCAGGTGGGTGCTGGACTGGCCTTGGAGGCTGGGGCCTGGGCTCACGGAGCCCCACCTGGGGGCTGTCATCCCTGTGCGGCCTGGCCTGGGCCCCTATGGGTCTGGGGGCTGCCCCCTCTCTCTGGACCTCTGTTGGGTCTGGATGCGTGAGGTTGGGGGAACCTCCCAGGGCCTCCTAGCTGCTCCCATCACCAAAAACTGACGTCAGGGTTTAAGCTTGGTGGGTAGCAGTGCCTGGGCCTGGGCAGTGACCCTGAGCAGGTGTTAACTAGGGGCCGAGGGCGGGGAAGGTGTCAGGGCCTGGCTGAGGCCTCAGGAATGTCGTGTGTCCTCCTGGAACCTGCTCCGAGATCTGGGGGCCCCAGTATGGAAACAGGCTCAGGGCTGTGACCTCCTGCCCGGCAGGACCTGAGTGTGAGGGTCTGTCCCACACTGACACCCTTTCTGCTCCTCCTAG
Seq C2 exon
AACCGTACGGAGTCCCCAGAACCTAATGCCACAGCGACCCCTGCGATCCCCACTATCCTGGTGACCTCTGTGACCTCTGAGACCCCAGCAACAAGTGCTCCAGAGGCAGAGGGACCCCAAAGTGGGGGGCTCCCGCCCCCGCCCAGGGCAGTTCCCTCGAGCAGTAGCCCCCAGGCCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000109758-HGFAC:NM_001528:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.205 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CTGGGCCCCTTCCTCCTC
R:
CTGGGGGCTACTGCTCGAG
Band lengths:
246-859
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)