MmuINT0078850 @ mm9
Intron Retention
Gene
ENSMUSG00000001249 | Hpn
Description
hepsin [Source:MGI Symbol;Acc:MGI:1196620]
Coordinates
chr7:31883744-31884398:-
Coord C1 exon
chr7:31884234-31884398
Coord A exon
chr7:31884093-31884233
Coord C2 exon
chr7:31883744-31884092
Length
141 bp
Sequences
Splice sites
5' ss Seq
AAGGTGTGT
5' ss Score
6.64
3' ss Seq
GCCTGTGGCTCTTTCCCTAGACT
3' ss Score
9.28
Exon sequences
Seq C1 exon
GGCGACAGTGGAGGCCCCTTTGTGTGTGAAGACAGCATCTCTGGGACATCAAGGTGGCGGCTATGTGGCATTGTAAGCTGGGGTACGGGCTGTGCTTTGGCCCGGAAGCCAGGAGTGTACACCAAAGTCACTGACTTCCGGGAGTGGATCTTCAAGGCCATAAAG
Seq A exon
GTGTGTTGCTATGGCGGGGGACTGTCTGGGACCCTAATAAGGAAAAGTAAGAGGGTACTCTGGAGAACAGGTGGATTCCCATAGGCTTCTGGGGATGGGACAAGCGTCTGAGACCTTGGAAGCCTGTGGCTCTTTCCCTAG
Seq C2 exon
ACTCACTCCGAAGCCAGTGGCATGGTGACTCAGCCCTGATCCCGCCTCATCTCGCTGCTCCGTGCTGCACTAGCATCCAGAGTCAGAGTTGGTCTGGTGGCTCCAGCCCCACGTGGTAGGCTCCACACTGGGCCTCACATGGAATGGTTTCCTGCTCAGATCCAGTCCACGGGTCCAAGGATGCTGGATCCAAGGACTTCTCTTCCACAGTGGCCGGCCCACTCAATCCCAGGGCCATTGGCCTCACCCTCCCACCCCATGTAAATATTACTCTGTCCTCTGGGGGGCGCTCTAGGGAGCCCCTTGTGCAGATGCTCTTTAAATAATAAAGGTGGTTTTGATTAATGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001249-Hpn:NM_008281:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.333
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PD(20.6=89.1)
A:
NA
C2:
NO
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:
ATGTGGCATTGTAAGCTGGGG
R:
AAACCATTCCATGTGAGGCCC
Band lengths:
253-394
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: