DreEX0005080 @ danRer10
Exon Skipping
Gene
ENSDARG00000027609 | HPN
Description
hepsin [Source:HGNC Symbol;Acc:HGNC:5155]
Coordinates
chr16:45306726-45321031:-
Coord C1 exon
chr16:45320930-45321031
Coord A exon
chr16:45306858-45306959
Coord C2 exon
chr16:45306726-45306767
Length
102 bp
Sequences
Splice sites
3' ss Seq
GTTTGGTTTATGTCCTTCAGGAC
3' ss Score
8.05
5' ss Seq
TCGGTGAGA
5' ss Score
8.51
Exon sequences
Seq C1 exon
GTCTGAAAGAACATCAAGTCGGATTTTTTGAGGAGGAATCATCTATTGGAAGCTTATATTTCAGCTTTCTTATTTGGATGAACATGTCAGAGAAGAAGGTCG
Seq A exon
GACGTCCAGGCATGAGCATCTTCAGTCCATGCCGGGTGGTCGCTGCAGTTTCTCTGATCTTGATTATTCTGGGAGGGCTGGGAGCCGCCATCTGGGCCCTCG
Seq C2 exon
TCACGTACCTTAGAACAACAGAGGATACAGGATTATTTGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000027609-'2-2,'2-1,5-2
Average complexity
C1
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.111 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
PF092725=Hepsin-SRCR=PU(3.7=26.7)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCTGAAAGAACATCAAGTCGGA
R:
ATAATCCTGTATCCTCTGTTGTTCT
Band lengths:
138-240
Functional annotations
There are 1 annotated functions for this event
PMID: 15627507
Both exons together encode a transmembrane domain and cause cytosolic retention when skipped. Hepsin/-TM (skipping) overexpression does not affect the growth of a human cancer cell line.
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]