MmuINT0078855 @ mm9
Intron Retention
Gene
ENSMUSG00000001249 | Hpn
Description
hepsin [Source:MGI Symbol;Acc:MGI:1196620]
Coordinates
chr7:31888173-31888442:-
Coord C1 exon
chr7:31888320-31888442
Coord A exon
chr7:31888214-31888319
Coord C2 exon
chr7:31888173-31888213
Length
106 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGC
5' ss Score
9.26
3' ss Seq
TCTCCTGTGTCTTCTCATAGTGA
3' ss Score
8.85
Exon sequences
Seq C1 exon
GGCTCTGGCGCACTCGGAGCTGGATGTGCGCACTGCGGGCGCCAACGGCACATCGGGCTTCTTTTGCGTGGACGAGGGCGGACTGCCTCTGGCTCAGAGGTTGCTGGATGTCATCTCTGTATG
Seq A exon
GTAAGCAGGGCGGCTGCGGGTGGTAATGGCAGGTCTCCAAATATCATTCTAACTGGTCCCCTGATTTATCTTTCTGTCGCCACCCCTCTCCTGTGTCTTCTCATAG
Seq C2 exon
TGACTGTCCTAGAGGCCGATTCCTGACTGCCACCTGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001249-Hpn:NM_008281:6
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:
CGCACTCGGAGCTGGATGT
R:
TGGCAGGTGGCAGTCAGG
Band lengths:
154-260
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: