MmuINT0130070 @ mm9
Intron Retention
Gene
ENSMUSG00000060224 | Pyroxd2
Description
pyridine nucleotide-disulphide oxidoreductase domain 2 [Source:MGI Symbol;Acc:MGI:1921830]
Coordinates
chr19:42809913-42810527:-
Coord C1 exon
chr19:42810386-42810527
Coord A exon
chr19:42810048-42810385
Coord C2 exon
chr19:42809913-42810047
Length
338 bp
Sequences
Splice sites
5' ss Seq
AAGGTCTGA
5' ss Score
4.3
3' ss Seq
GGGGTCTCCTGCTGGGGCAGACT
3' ss Score
2.91
Exon sequences
Seq C1 exon
GTATGTGCTGCTGCATCACGTGATGGGTAGCCTGGAGGGGACGCAGGGCGCCTGGAGCTACGTCCAGGGTGGCATGGGCGCCCTCTCTGATGCCATCGCGAGCTCGGCTGCTACACGTGGAGCAAGCATCTTCACAGAAAAG
Seq A exon
GTCTGAGCCTCTTCCCCAACCCTGACTGTTGGCCTGGATGCAGGGTGGAGGGCGGAGCAGCCTCGGACTCAGAGAGACTCTTGAGTCACTGATGAACAAAGTGAAGCCCGGAGTTCAGGTTCTCGCTTCGAGACTGCCCAACTTTTCAAGTTCACCAGTCACAAAGCCTCGCGTGGGCTGTGCTCCATGGTGGGCAGGTTGCATCAGTGCACCCCGAGAAGCCTCTGGCTTGAGGAATGGGTTAGGGGTGAAAAAGGATGGGTGCCTACGAGCCACACCCACAATTCTCAACCTGGGCTTCCTTCTGGGGGTGCTTTGGGGGTCTCCTGCTGGGGCAG
Seq C2 exon
ACTGTGGCTAAGGTTCAGGTGAACAGTGAAGGCCGTGCCCAAGGAGTCACACTGCAGGACGGCGAGGAGGTCAGAAGCAGAGTCGTCTTGTCCTGCGCGTCACCACAGGTCACCTTCTTAGAGCTGACACCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000060224-Pyroxd2:NM_029011:9
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=0.156
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
TGCTGCTGCATCACGTGAT
R:
GTGGTGTCAGCTCTAAGAAGGTG
Band lengths:
270-608
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: