HsaINT0077387 @ hg19
Intron Retention
Gene
ENSG00000105707 | HPN
Description
hepsin [Source:HGNC Symbol;Acc:5155]
Coordinates
chr19:35550778-35551073:+
Coord C1 exon
chr19:35550778-35550900
Coord A exon
chr19:35550901-35551032
Coord C2 exon
chr19:35551033-35551073
Length
132 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGG
5' ss Score
6.13
3' ss Seq
TCCAATCCCATCTCTCCCAGTGA
3' ss Score
6.57
Exon sequences
Seq C1 exon
GGCACTGACCCACTCCGAGCTGGACGTGCGAACGGCGGGCGCCAATGGCACGTCGGGCTTCTTCTGTGTGGACGAGGGGAGGCTGCCCCACACCCAGAGGCTGCTGGAGGTCATCTCCGTGTG
Seq A exon
GTGAGGAGGGCAGCGGGCAGGTGGGGCAACACCTCAGACCCCCAAGGCACTCCCTCTCCCCGTTTTCCTTCCACCTGTCTTAACTGGTCTCTATTTCCTTTCTTTCTGTGTCTCCAATCCCATCTCTCCCAG
Seq C2 exon
TGATTGCCCCAGAGGCCGTTTCTTGGCCGCCATCTGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000105707-HPN:NM_182983:6
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=FE(37.3=100)
A:
NA
C2:
PF092725=Hepsin-SRCR=FE(12.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
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:
ACTGACCCACTCCGAGCTG
R:
AGATGGCGGCCAAGAAACG
Band lengths:
155-287
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)