HsaINT0077389 @ hg19
Intron Retention
Gene
ENSG00000105707 | HPN
Description
hepsin [Source:HGNC Symbol;Acc:5155]
Coordinates
chr19:35551251-35551721:+
Coord C1 exon
chr19:35551251-35551416
Coord A exon
chr19:35551417-35551530
Coord C2 exon
chr19:35551531-35551721
Length
114 bp
Sequences
Splice sites
5' ss Seq
GGAGTGAGT
5' ss Score
6.05
3' ss Seq
TCCACCCCTTTCCCTGGTAGGCG
3' ss Score
8.85
Exon sequences
Seq C1 exon
ACTGTGGCCGCAGGAAGCTGCCCGTGGACCGCATCGTGGGAGGCCGGGACACCAGCTTGGGCCGGTGGCCGTGGCAAGTCAGCCTTCGCTATGATGGAGCACACCTCTGTGGGGGATCCCTGCTCTCCGGGGACTGGGTGCTGACAGCCGCCCACTGCTTCCCGGA
Seq A exon
GTGAGTGCCCCCCAATGGCGCTGATGATGGGGAGGCAGAGGAGCGGAGAGACAGTGGGGAGGAGGGCGGATTGTGCCCAGGCAGGTGGCCACCCTCCACCCCTTTCCCTGGTAG
Seq C2 exon
GCGGAACCGGGTCCTGTCCCGATGGCGAGTGTTTGCCGGTGCCGTGGCCCAGGCCTCTCCCCACGGTCTGCAGCTGGGGGTGCAGGCTGTGGTCTACCACGGGGGCTATCTTCCCTTTCGGGACCCCAACAGCGAGGAGAACAGCAACGATATTGCCCTGGTCCACCTCTCCAGTCCCCTGCCCCTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000105707-HPN:NM_182983:8
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:
PF092725=Hepsin-SRCR=PD(6.4=12.5),PF0008921=Trypsin=PU(18.5=78.6)
A:
NA
C2:
PF092725=Hepsin-SRCR=PD(27.7=27.7),PF0008921=Trypsin=FE(32.8=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:
CGCTATGATGGAGCACACCTC
R:
GAGAGGTGGACCAGGGCAATA
Band lengths:
251-365
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)