MmuINT0124087 @ mm10
Intron Retention
Gene
ENSMUSG00000039254 | Pomt1
Description
protein-O-mannosyltransferase 1 [Source:MGI Symbol;Acc:MGI:2138994]
Coordinates
chr2:32236590-32237511:+
Coord C1 exon
chr2:32236590-32236741
Coord A exon
chr2:32236742-32237359
Coord C2 exon
chr2:32237360-32237511
Length
618 bp
Sequences
Splice sites
5' ss Seq
CTCGTAGGT
5' ss Score
4.63
3' ss Seq
GTTCTTTCCCTCTTTTCCAGGGA
3' ss Score
11.24
Exon sequences
Seq C1 exon
CTGTCGGCCGCGTAGACACAACTAGTTGAGCGTCGATCCGTGGCCGCTGCAGAGTAATCGAGCGGCCTCGCCCCCAACGGTCGATCCTGCCTGGCGGTTCGCAGGCCTGGCTCCACATGGGGAGCCACTCTACGGGACTCGAAGAAACGCTC
Seq A exon
GTAGGTTTTGGAGTGCCAGATTTGAGAGCCCTCCTGGGGTCTGGGATCCGGCTTAGGGGCGGCGCGCTAGGGACGGTGGATGTTCGGATCCTGGCTGAGCAAGTCGTTTCCAGGGCGGCCTCTTGTAAAAGCCAGAGTGGGAAGAACTGTAGAGAAAGAACGGGCTCGGGGCACAAGCAACTCTAGGAGGAGAGGAATGCCTCCAGAAGAGGGAAAAGTCCATCCAGGTCACTGGGCTATGACAGTGCCCAGAGCTCCTCAGGGTCTTAGTTTTCAACCACATTGGGAAGGGACAGGAGAGGCCACTTCATTCATTAGCAGCCTTGTTCCTAGCAAGTGCCCAGCAGGTGTTTTTGGAATGACTTGTAGAAATGAGTATCCAGTTCTGAGATTCCTGAATTCACCCCTCAGATGTTTTTATGTATACCCTGTGCTTGAACACAACTGTAATTCTCCAACAGGTATGTTCTGGAAGAGTCCTTCTGGTTCTATTAACCCAACCCGCTATGCTGTAAATTCATCGTGACGCCAGGCGGCTTTAGGACCCTGTGGCCTCGTTTGTGCCTTCCCGGGCTGCTGTCCGTTTACTTTAATGGTAGTTCTTTCCCTCTTTTCCAG
Seq C2 exon
GGAGTCCTCCCGAGCTGGCTTTTCTGCAAAATGTTAAGATTTTTGAAACGGCCTCTAGTGGTGACTGTTGACATCAATTTGAACTTGGTAGCTCTGACTGGCCTGGGACTACTTACCCGACTATGGCAACTCTCCTACCCTCGGGCTGTGGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039254:ENSMUST00000036473:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0236613=PMT=PU(16.3=41.2)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTCGGCCGCGTAGACA
R:
CACAGCCCGAGGGTAGGAG
Band lengths:
302-920
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