MmuINT0124087 @ mm9
Intron Retention
Gene
ENSMUSG00000039254 | Pomt1
Description
protein-O-mannosyltransferase 1 [Source:MGI Symbol;Acc:MGI:2138994]
Coordinates
chr2:32092203-32093031:+
Coord C1 exon
chr2:32092203-32092261
Coord A exon
chr2:32092262-32092879
Coord C2 exon
chr2:32092880-32093031
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
GCGGTTCGCAGGCCTGGCTCCACATGGGGAGCCACTCTACGGGACTCGAAGAAACGCTC
Seq A exon
GTAGGTTTTGGAGTGCCAGATTTGAGAGCCCTCCTGGGGTCTGGGATCCGGCTTAGGGGCGGCGCGCTAGGGACGGTGGATGTTCGGATCCTGGCTGAGCAAGTCGTTTCCAGGGCGGCCTCTTGTAAAAGCCAGAGTGGGAAGAACTGTAGAGAAAGAACGGGCTCGGGGCACAAGCAACTCTAGGAGGAGAGGAATGCCTCCAGAAGAGGGAAAAGTCCATCCAGGTCACTGGGCTATGACAGTGCCCAGAGCTCCTCAGGGTCTTAGTTTTCAACCACATTGGGAAGGGACAGGAGAGGCCACTTCATTCATTAGCAGCCTTGTTCCTAGCAAGTGCCCAGCAGGTGTTTTTGGAATGACTTGTAGAAATGAGTATCCAGTTCTGAGATTCCTGAATTCACCCCTCAGATGTTTTTATGTATACCCTGTGCTTGAACACAACTGTAATTCTCCAACAGGTATGTTCTGGAAGAGTCCTTCTGGTTCTATTAACCCAACCCGCTATGCTGTAAATTCATCGTGACGCCAGGCGGCTTTAGGACCCTGTGGCCTCGTTTGTGCCTTCCCGGGCTGCTGTCCGTTTACTTTAATGGTAGTTCTTTCCCTCTTTTCCAG
Seq C2 exon
GGAGTCCTCCCGAGCTGGCTTTTCTGCAAAATGTTAAGATTTTTGAAACGGCCTCTAGTGGTGACTGTTGACATCAATTTGAACTTGGTAGCTCTGACTGGCCTGGGACTACTTACCCGACTATGGCAACTCTCCTACCCTCGGGCTGTGGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039254-Pomt1:NM_145145:1
Average complexity
IR-S
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(11.4=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:
CAGGCCTGGCTCCACATG
R:
AGCCCGAGGGTAGGAGAGTT
Band lengths:
198-816
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: