MmuINT0124100 @ mm9
Intron Retention
Gene
ENSMUSG00000039254 | Pomt1
Description
protein-O-mannosyltransferase 1 [Source:MGI Symbol;Acc:MGI:2138994]
Coordinates
chr2:32096185-32097319:+
Coord C1 exon
chr2:32096185-32096235
Coord A exon
chr2:32096236-32097172
Coord C2 exon
chr2:32097173-32097319
Length
937 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
GCTATGTGATTCCTTTCCAGAGT
3' ss Score
6.53
Exon sequences
Seq C1 exon
GTTGGTTAGGGGGATTCGATGGTAACTTTCTGTGGAACCGAATTGGAGCAG
Seq A exon
GTAAGGATTTTAACTCTCCTTATGAATCTACATATGAAAGAATAGAGACAGGATGCCCATCCCCCACCCAGCACTTAACCTTTTACTACGCTGAGCCAGGATACAGCTGGGTATTTATGTTCAAGGGACCATCTGGTTAAAGGGGCAGGAGGGATGGCTAAGCAGTTAAGAGCACTGCTGCTCTTCTGGAGGTTCAGGACTTGGTTGCCAGCACCCACATGATGGTGCTCAACCATCCGTAACTCCAGTTCCAGGGTGTTTGCCACAGTGGCCAGGCATATACAGTCATATATGCAAATACCCATGTACATAAATAAAAGATAAAAAGAAAGAAAAGTCTGCTTAAAGTTTTAAGTGCTTTGTGATTGTAACTATTCCATCCCTGGCTCTTGGTACATGTGTCCTGTGGCATTTGGCAGCCACTGTGTATGTATAAACTTTGTGGCCATAATGTTTTTAGAAGCTCCTTGGGGTACATATGCTAAATCAGCATTAATTTCGGAACCCTCCCTCACCACATCTATGCTCGGTGAGAGCTGGCACCACGGCTGCAGAGCTGATATTTACTACCCAGAGAGGCTGAGGCAGGAGGATCACCTGAACTCAGGAGACTGACATCCTAGACAAGCAGGGTCTCACTATATAGTCTAGGCTGGCTTGGAACTCAATATGTAGACCAGGCTGGCCTTGAACTCATGATCATCCTGCCTCTCAAGTGCTAGGATTTAAGGTGTTCATCACCATACCCAGTGGTGAAACCCAGTCTCTTAAAAACTACCCACCAATCAAATTCCCAAGCTCATTTCAAAGACTTTACCCCAAGTGTACACCCTCAGTAGCTCATGTGCCTCCCAGTTTTGTAAGATTGCATTTGCCAGTCTGTGAGCTGCTGTGTCAGTAGGCAAGCTCTCAGCTCTGCTATGTGATTCCTTTCCAG
Seq C2 exon
AGTACAGTAGCAATGTGCCTATATGGTCCTTACGCCTGCTGCCAGCGCTTGCCGGGGCCCTGTCAGTGCCCATGGCCTACCAGATAGTGCTAGAGCTCCACTTTTCCCACGGTGCTGCCATTGGAGCCGCCCTGCTGATGCTCATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039254-Pomt1:NM_145145:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0236613=PMT=FE(6.9=100)
A:
NA
C2:
PF0236613=PMT=FE(19.8=100)
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:
GTTGGTTAGGGGGATTCGATGG
R:
CAATGAGCATCAGCAGGGCG
Band lengths:
198-1135
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: