MmuINT0124092 @ mm10
Intron Retention
Gene
ENSMUSG00000039254 | Pomt1
Description
protein-O-mannosyltransferase 1 [Source:MGI Symbol;Acc:MGI:2138994]
Coordinates
chr2:32250470-32250909:+
Coord C1 exon
chr2:32250470-32250562
Coord A exon
chr2:32250563-32250788
Coord C2 exon
chr2:32250789-32250909
Length
226 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAG
5' ss Score
9.06
3' ss Seq
GCCTTTCTTGGTTTTACTAGCTG
3' ss Score
6.83
Exon sequences
Seq C1 exon
GACATTGTGAACAGAGAGTCCAACCGGGATACCTGGAAGACTATCTTGTCGGAAGTGCGCTTTGTACATGTGAACACATCCGCCATCTTGAAG
Seq A exon
GTAAAGGGTAGCTCAGGTATGCCTGTCAGGCCTAGCCTCACCCAGACTATTCCTGGAGCTGTTCAGGCCTGTGCTCACATAGCTGCCAAGTGATGAACATCTCCCTGTTTTATAGTACACGCAGGGGGAGAAGAATCCTAGGAAGACCTGGGGCAGGGACCTGCTGACACAGCAGTGGGGTCAGCCGACTCTCTGTCATGCTCATTGCCTTTCTTGGTTTTACTAG
Seq C2 exon
CTGAGCGGGGCTCACCTCCCTGACTGGGGGTTCCGGCAGTTGGAGGTAGTTGGGGAGAAGTTGTCACCGGGCTACCACGAGAGCATGGTGTGGAATGTGGAAGAACACCGGTATGGCAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039254:ENSMUST00000036473:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.022 A=NA C2=0.102
Domain overlap (PFAM):
C1:
PF0281514=MIR=FE(17.0=100)
A:
NA
C2:
PF0281514=MIR=PD(21.0=90.2)
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:
ACATTGTGAACAGAGAGTCCAACC
R:
TTTGCCATACCGGTGTTCTTCC
Band lengths:
212-438
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