HsaINT0075910 @ hg19
Intron Retention
Gene
ENSG00000109758 | HGFAC
Description
HGF activator [Source:HGNC Symbol;Acc:4894]
Coordinates
chr4:3449855-3451213:+
Coord C1 exon
chr4:3449855-3450003
Coord A exon
chr4:3450004-3450963
Coord C2 exon
chr4:3450964-3451213
Length
960 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TGACCAACGTCTCTGCCCAGGGG
3' ss Score
6.21
Exon sequences
Seq C1 exon
ACGTGAGCGGCTACTCCAGCTCCCTGCGGGAGGCCCTGGTCCCCCTGGTCGCCGACCACAAGTGCAGCAGCCCTGAGGTCTACGGCGCCGACATCAGCCCCAACATGCTCTGTGCCGGCTACTTCGACTGCAAGTCCGACGCCTGCCAG
Seq A exon
GTGAGCTGGTGCCCGCCCCACCAGGACCCGACTGGTGGGGGCTCAGCTGGTCCTGAGTCTCCGAGATGCTTGCCCCTGGGGAGCCCAGAGCCTGGCGGCACCCCAACCTGGCAGGGCCAGCCAGGGACCCCTGGGCAGGGAGCACACTTACTGTCGGTGGCCAGCACCCCAGGGCCACCCAGAGCCCTGCCGGAAGGGCATCCTCCTCACACAGAAGGGGAGACCCAGGCTCTGAGAGGGGCCTGGGGTCCCACAGAGCCCGGACAGTTCCTGGCTGTCCAGCCCAAGGCAGTGCTTTCCGTGTGACACTAGGCACCAAAGGCCCCTTTGCCCCGAGTTCTCTCAAGCCAGCTCTTCAACCTTCAATAAGTTCTTCAACCTTCAATAAGCCCAACAGCCCAACCACGTCCTGGGCTCTGCAGGCCTGTGTGCTCAGGCGGCACGGCAACCCTGGCATGCGACGGCTCTCTTATGCCCCATTTTATAGCTGGGGAGACTGAGCCCCAGGCAGTCAATTCACTCTTCCAAGGCCACAAAGCCCAGGAGTGGTAGAGTGGGTAGGGCTTGTCACTGGACCTCGATAAGGGAAGTCAGGATGGTTTCCTGGAGGAGGGAGTGTTTGCACTGGTCCTGAGTGATGCGTAGGAGTTTTCCAGGGAGTGAAGAAGTCATTTCAGGAGGTGCTGGGACACAGGGTGGCTGTGTGGTCCACACAGGGTTCATGCTGGTGGGGAGAGGGGGACCGTGGCTTCAGGAAGGGGAATAACGTGGTTGGATGCCCTGGCCCAGCCAGTGCTGCCCCCAGGGAATGAGACACCTTTTCATGAGGTTCAGGAGAGTGGATCAGCTCCCTTGCTCAGAAATGCCTTTGTCCTCTGTCCCCAAGCTGCCACTTGGGGGAGAGGGGGGTCCCTGAACCAGGCCCCTGGGAGGGTGGCTCTGACCAACGTCTCTGCCCAG
Seq C2 exon
GGGGACTCAGGGGGGCCCCTGGCCTGCGAGAAGAACGGCGTGGCTTACCTCTACGGCATCATCAGCTGGGGTGACGGCTGCGGGCGGCTCCACAAGCCGGGGGTCTACACCCGCGTGGCCAACTATGTGGACTGGATCAACGACCGGATACGGCCTCCCAGGCGGCTTGTGGCTCCCTCCTGACCCTCCAGCGGGACACCCTGGTTCCCACCATTCCCTGCCTTGCTGACAATAAAGATATTTCCAAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000109758-HGFAC:NM_001528:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.017
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(20.9=100)
A:
NA
C2:
PF0008921=Trypsin=PD(19.2=73.8)
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:
ACGTGAGCGGCTACTCCAG
R:
CGCTGGAGGGTCAGGAGG
Band lengths:
342-1302
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)