MmuINT0124088 @ mm10
Intron Retention
Gene
ENSMUSG00000039254 | Pomt1
Description
protein-O-mannosyltransferase 1 [Source:MGI Symbol;Acc:MGI:2138994]
Coordinates
chr2:32245547-32246110:+
Coord C1 exon
chr2:32245547-32245677
Coord A exon
chr2:32245678-32246014
Coord C2 exon
chr2:32246015-32246110
Length
337 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGG
5' ss Score
6.35
3' ss Seq
TTTGTTGACATCTCACACAGATA
3' ss Score
5.91
Exon sequences
Seq C1 exon
GGAGGGCTTGCCCGCATCACCCAAGGCCAGCCCCTGGAGGTGGCCTTTGGTTCCCAGGTCACTCTGAAGAGCGTCTCTGGCAAACCCTTGCCCTGCTGGCTTCATTCGCACAAGAACACCTATCCCATGAT
Seq A exon
GTAAGGAAAGTGACAATTTTAATTTGTAATCACAAATGTTTTACATTCTCCCAGTTTGCTAAGAGCTGCCATTTTCTGTGATCAAGTTTAGAGAGACAAAGGCAGCAGGGCCCAGGCCCAGGCCCAGGCCTTTTGTGGTGTCCAGTATGAAACACTAGGAGGACTGAGGCATGCCAGCCACTCCTCCTCCAGTGCCTCAGAGCAACTCTGCCTCACTGTTTGTTCCATGTTCTCTGGCCCCTATATTGTTGAGTAAAACTTCCTACTGGGTGTTCTCTGCAGAGACCACTAGAGAGCCACCCGCTTCAGGTGTCTTCTTTGTTGACATCTCACACAG
Seq C2 exon
ATATGAGAATGGCCGTGGCAGCTCCCACCAGCAACAGGTGACCTGTTATCCCTTCAAAGACATCAATAACTGGTGGATCGTCAAGGATCCTGGGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039254:ENSMUST00000036473:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.061
Domain overlap (PFAM):
C1:
PF0281514=MIR=PU(6.2=25.0)
A:
NA
C2:
PF0281514=MIR=FE(18.2=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:
GAGGGCTTGCCCGCATCA
R:
GCCCAGGATCCTTGACGATC
Band lengths:
225-562
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