MmuINT0122156 @ mm9
Intron Retention
Gene
ENSMUSG00000034247 | Plekhm1
Description
pleckstrin homology domain containing, family M (with RUN domain) member 1 [Source:MGI Symbol;Acc:MGI:2443207]
Coordinates
chr11:103228912-103229485:-
Coord C1 exon
chr11:103229422-103229485
Coord A exon
chr11:103229070-103229421
Coord C2 exon
chr11:103228912-103229069
Length
352 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
GTCTCCACTTGTTCCTGCAGATT
3' ss Score
10.96
Exon sequences
Seq C1 exon
GCTGAGCCACAGGAATTATCTCCTGGAGTCTCCACACAGATTCAGTGTTGCTGACCTCCAGCAG
Seq A exon
GTGAGCACCCCCTGCTCCCCACCCCTAAATCTTAGACTCAGAAGTAGGTTCTTAATCTTGAAGAAATCAGAGAAATAGCAGAAGGGACACCTGTCATTAACTCAGGCCACCCCTCAGAATGGCTGCTCTCCTGTCCTCCACCTCTTGACTAACCAGGGGCTCCAGCACCCCAAGGGTGAGAGCAGATAGGCATTTCCTTCAAGGACAGCATCCATAAGTACCATGCCCCACTCCAACAGCCTGATCGATGCAGGGTGTGCTCCTTGCCCATGTGGAACTGGGGGAGATCTGAGGTAGGTGCTATGGTGGGGCAGTGGAGCCATCTAAGACTGGTCTCCACTTGTTCCTGCAG
Seq C2 exon
ATTGCAGAGGGGGTATATGAAGGGTTCCTCAAAGCCCTGATTGAATTCGCATCCCAGCATGTCTACCACTGTGACCTGTGCACCCAGCGAGGCTTCATCTGCCAGATCTGCCACCACCAGGACATCATCTTTCCCTTTGAGTTTGACACCACAGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034247-Plekhm1:NM_183034:10
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:
PF139011=DUF4206=FE(10.2=100)
A:
NA
C2:
PF139011=DUF4206=FE(25.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGAGCCACAGGAATTATCTCC
R:
CTGACTGTGGTGTCAAACTCA
Band lengths:
222-574
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: