MmuINT0124093 @ mm10
Intron Retention
Gene
ENSMUSG00000039254 | Pomt1
Description
protein-O-mannosyltransferase 1 [Source:MGI Symbol;Acc:MGI:2138994]
Coordinates
chr2:32250789-32251359:+
Coord C1 exon
chr2:32250789-32250909
Coord A exon
chr2:32250910-32251261
Coord C2 exon
chr2:32251262-32251359
Length
352 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
TCGTCCTTGTCTACTGTCAGGCC
3' ss Score
6.15
Exon sequences
Seq C1 exon
CTGAGCGGGGCTCACCTCCCTGACTGGGGGTTCCGGCAGTTGGAGGTAGTTGGGGAGAAGTTGTCACCGGGCTACCACGAGAGCATGGTGTGGAATGTGGAAGAACACCGGTATGGCAAAA
Seq A exon
GTGAGTCATCAAAGCTCTGGGCCATGGGCATCTGCTTGTCTCTGTGGATCTGGTGCCACTCAAGGAAACGCCAAAGCAACGCTGGGTTTGGAGGGACCTAGGTTCCTCCATTCTGTTTGGCTGAGTCCCTTGCACCCATCCATGAGTAATAAGGCGTTTGTGCTACGGGCCTGCGGAGGAGGCTCCTGCATCCCAGAGTACACTAATCCTGTCTTGGCCGAGGAGTGTGGGGTGTGGGAACCTATGGGGTGATGTGGTTTGGTGAGGTGTCCCCCTGGATACGGGAAGGCTGGTGGTAGCTTCTGTCCTCCCCTCTTCAGCCTCTCTGTGTCTCGTCCTTGTCTACTGTCAG
Seq C2 exon
GCCATGAGCAGAAGGAGAGGGAGCTGGAGCTCCACTCGCCCACTCAGCTCGATATCAGCAGGAACCTCAGCTTCATGGCCAGATTCTCAGAGTTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039254:ENSMUST00000036473:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.102 A=NA C2=0.091
Domain overlap (PFAM):
C1:
PF0281514=MIR=PD(21.0=90.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGCTCACCTCCCTGACTG
R:
CTCTGAGAATCTGGCCATGAAGC
Band lengths:
206-558
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types