HsaINT0075906 @ hg38
Intron Retention
Gene
ENSG00000109758 | HGFAC
Description
HGF activator [Source:HGNC Symbol;Acc:HGNC:4894]
Coordinates
chr4:3441887-3442912:+
Coord C1 exon
chr4:3441887-3442118
Coord A exon
chr4:3442119-3442731
Coord C2 exon
chr4:3442732-3442912
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
GGCCCGCCTGACGTGGGAGGCAGCCAGGGTTAATCATTTCCACGAAGCCTTGACCCCACCTGCCTTGGCCGCTCTGCTCCCGCCTCCCACTGCCCCTCAGGCCAGCTCAGGAGCCATGGGGCGCTGGGCCTGGGTCCCCAGCCCCTGGCCCCCACCGGGGCTGGGCCCCTTCCTCCTCCTCCTCCTGCTGCTGCTGCTGCTGCCACGGGGGTTCCAGCCCCAGCCTGGCGGG
Seq A exon
GTGAGCACTGACCTTGTCGCAGTGCGACCAGAGGTTCCCAGTGGCTACTTGGGGTCCTTGGGAGGAGGCCAGAGGGAGGGTCGCCACAGAGCGTGGGGATTTGAGGGGGCGGGGGTCCGAGCAGGGGGCTTACGTTGAAAGCTGGCCCTCACAGGGCAGGTGGGTGCTGGACTGGCCTTGGAGGCTGGGGCCTGGGCTCACGGAGCCCCACCTGGGGGCTGTCATCCCTGTGCGGCCTGGCCTGGGCCCCTATGGGTCTGGGGGCTGCCCCCTCTCTCTGGACCTCTGTTGGGTCTGGATGCGTGAGGTTGGGGGAACCTCCCAGGGCCTCCTAGCTGCTCCCATCACCAAAAACTGACGTCAGGGTTTAAGCTTGGTGGGTAGCAGTGCCTGGGCCTGGGCAGTGACCCTGAGCAGGTGTTAACTAGGGGCCGAGGGCGGGGAAGGTGTCAGGGCCTGGCTGAGGCCTCAGGAATGTCGTGTGTCCTCCTGGAACCTGCTCCGAGATCTGGGGGCCCCAGTATGGAAACAGGCTCAGGGCTGTGACCTCCTGCCCGGCAGGACCTGAGTGTGAGGGTCTGTCCCACACTGACACCCTTTCTGCTCCTCCTAG
Seq C2 exon
AACCGTACGGAGTCCCCAGAACCTAATGCCACAGCGACCCCTGCGATCCCCACTATCCTGGTGACCTCTGTGACCTCTGAGACCCCAGCAACAAGTGCTCCAGAGGCAGAGGGACCCCAAAGTGGGGGGCTCCCGCCCCCGCCCAGGGCAGTTCCCTCGAGCAGTAGCCCCCAGGCCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000109758:ENST00000382774:1
Average complexity
IR
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
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACGAAGCCTTGACCCCAC
R:
TACTGCTCGAGGGAACTGCC
Band lengths:
358-971
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