MmuINT0078857 @ mm9
Intron Retention
Gene
ENSMUSG00000001249 | Hpn
Description
hepsin [Source:MGI Symbol;Acc:MGI:1196620]
Coordinates
chr7:31887497-31887945:-
Coord C1 exon
chr7:31887780-31887945
Coord A exon
chr7:31887688-31887779
Coord C2 exon
chr7:31887497-31887687
Length
92 bp
Sequences
Splice sites
5' ss Seq
AGAGTGAGT
5' ss Score
7.36
3' ss Seq
GTTCCTTCTGTCCCCGGCAGGCG
3' ss Score
9.85
Exon sequences
Seq C1 exon
ACTGTGGCCGCAGGAAGCTGCCGGTGGACCGCATTGTGGGGGGCCAGGACAGCAGTCTGGGAAGGTGGCCGTGGCAGGTCAGCCTGCGTTATGATGGGACCCACCTCTGTGGGGGGTCCCTGCTGTCTGGGGACTGGGTGCTGACTGCTGCACATTGCTTTCCAGA
Seq A exon
GTGAGTGTTTTCTCACAGTGCCACCTGGGGTAGGGCAGGAGAGAGGTCTGCAGAGGCTGAGCCCAGGGACTTGTTCCTTCTGTCCCCGGCAG
Seq C2 exon
GCGGAACCGGGTCCTGTCTCGGTGGCGAGTATTTGCTGGTGCTGTAGCCCGGACCTCACCCCATGCTGTGCAACTGGGGGTTCAGGCTGTGATCTATCATGGGGGCTACCTTCCCTTTCGAGACCCTACTATCGACGAAAACAGCAATGACATTGCCTTGGTCCACCTCTCTAGCTCCCTGCCTCTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001249-Hpn:NM_008281:8
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:
PF0008921=Trypsin=FE(26.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCGTTATGATGGGACCCAC
R:
TAGATCACAGCCTGAACCCCC
Band lengths:
179-271
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: