MmuINT0124094 @ mm10
Intron Retention
Gene
ENSMUSG00000039254 | Pomt1
Description
protein-O-mannosyltransferase 1 [Source:MGI Symbol;Acc:MGI:2138994]
Coordinates
chr2:32251262-32252023:+
Coord C1 exon
chr2:32251262-32251359
Coord A exon
chr2:32251360-32251909
Coord C2 exon
chr2:32251910-32252023
Length
550 bp
Sequences
Splice sites
5' ss Seq
CAGGTGATG
5' ss Score
5.99
3' ss Seq
TGTGCTTTATCCTGTGGCAGTGG
3' ss Score
5.64
Exon sequences
Seq C1 exon
GCCATGAGCAGAAGGAGAGGGAGCTGGAGCTCCACTCGCCCACTCAGCTCGATATCAGCAGGAACCTCAGCTTCATGGCCAGATTCTCAGAGTTACAG
Seq A exon
GTGATGAGTGCCTGGAGGGATGCCCGCCCGCCTGCCCTTGCTCGGTGGGAGCTGATTTCTGCCTTTGATGGCGCCGCGTGCTATTGCTGGGCTCTGAAGTTCAAAGGACTTGAACCTGGAACTTGAGAGTCTGCAGCAGAATGAGTGTCTCTCCCGACTTCAGGCCCCATGGACCTGCACCTAGTAGGTCAGGGCCAAGGAGTTACTGTACTCATGTGACATTACAATAAAGTCGGGATGTCTTCAGGCCTCCCGTCAGGTCAGAATGGGCCACATTCAACTCACAGAGCCCTAGGTAAGACAGTCAGACACTCAACTCTGTGACAAGATTCCTGTCGCAGTCTGCAGGGCAGATGCTGGAATGTGTGCAGTCAGGACCCCTACCATCAGCCCAGGTCAGCTTGCAGGGCCCCCACCGGCAGCACTTGCTGATTGAACTTAGGCTGGGCGGTTGGCATACAAGGGATAGCAGTTTAGTGATAGACCATGACATCGTGGCAGCTAGAGGCAATGATCTTCTGCAACCTGTGTGTGCTTTATCCTGTGGCAG
Seq C2 exon
TGGAAGATGCTGACGCTGAAGAATGAGGACTTGGAACACCAGTACAGCTCCACCCCGCTGGAGTGGCTCACGCTGGACACCAACATCGCCTATTGGCTACATCCCAGGACCAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039254:ENSMUST00000036473:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.091 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CCATGAGCAGAAGGAGAGGGA
R:
TGGTCCTGGGATGTAGCCAAT
Band lengths:
209-759
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