MmuINT0078852 @ mm9
Intron Retention
Gene
ENSMUSG00000001249 | Hpn
Description
hepsin [Source:MGI Symbol;Acc:MGI:1196620]
Coordinates
chr7:31893984-31894211:-
Coord C1 exon
chr7:31894110-31894211
Coord A exon
chr7:31894026-31894109
Coord C2 exon
chr7:31893984-31894025
Length
84 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGA
5' ss Score
6.29
3' ss Seq
CTGTTCTCCCCTCTCCACAGTGA
3' ss Score
11.37
Exon sequences
Seq C1 exon
GTGGCCGGACTGCAGCATGCTGCTCCAGACCCAAGGTGGCAGCTCTCATTGTGGGTACCCTGCTGTTCCTGACAGGCATTGGGGCCGCGTCCTGGGCCATTG
Seq A exon
GTGAGAAAAGACCCCCCCATCCCCAAGCTCCCGAGGTCTCCCCTACCCCAGGGTTACAACCCGCCTGTTCTCCCCTCTCCACAG
Seq C2 exon
TGACCATCCTACTGCAGAGTGACCAGGAGCCACTGTACCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001249-Hpn:NM_008281:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.055 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF092725=Hepsin-SRCR=PU(3.6=26.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
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:
CCGGACTGCAGCATGCTG
R:
TTGGTACAGTGGCTCCTGGTC
Band lengths:
139-223
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: