MmuINT0122941 @ mm9
Intron Retention
Gene
ENSMUSG00000026926 | Pmpca
Description
peptidase (mitochondrial processing) alpha [Source:MGI Symbol;Acc:MGI:1918568]
Coordinates
chr2:26246604-26247486:+
Coord C1 exon
chr2:26246604-26246698
Coord A exon
chr2:26246699-26247385
Coord C2 exon
chr2:26247386-26247486
Length
687 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGG
5' ss Score
6.34
3' ss Seq
CCTTGTCTGGACTCTTGCAGATG
3' ss Score
8.91
Exon sequences
Seq C1 exon
AGACACCACCATGTATGCTGTGTCTGCTGACAGCAAAGGCTTGGACACTGTGGTGGATCTGTTGGCTGATGTGGTTCTGCACCCCCGACTGACAG
Seq A exon
GTGTGGCTCTGAGGCTGGGTGGTCAGGAGGAGCTTTGGAAGGGCTATAACTTCCTGTGGGGAGGCACTGTTAGAGCCGGGCACTCATGTGCCAATCATTGGAGAGTGCCAGTGCTGAAACAAGCCTGCAGTGTTCTACACAATGTTTCATCCTTTAATATATCTAAACGAGACCTTAAAGGGTTTACTAAAGTTCTGCTCAGAAATGTCCCTCATCCCGTGTGTAAGCATGAATGCCATGCCTACAGAAGTTTCTCTTGCCTGGTCTCCTTTATCCTCCGAGTCTTTGAGTCCTGTTAGGATGGGAGAGGGCGCAGCAGCTAGCCCTGCCAGCTGCTTTTTGCCCAGTTTCACAGCAGCCTGGCCGCATGTCTCCAGCGGAGGAATGGAGCCCTGACTCAGGGGGTGTCTGGTTCCTAAGTGTTACCACAGCCACCTTGTGTCCTCACAGGTGTGTTTTGGAACAGACAGCAGGTGAAGCAGCAGAGCTTGGAGCAGGTCCAAAGGTCTGCAGAACAGAAAAAGACAAGAGGCCGGGGGCCCTAATTTTCATCTGGCCTCCTCCCTTGCAGGTGCTCCAGAGCTTTTGCTAGCACGATAGCAAGCACCTAGCCAGGCCCGGCTGCTCAGGTCAGTGCTGTCTTCTTCCTTGCTGGTTCAGGCCAAACCCTTGTCTGGACTCTTGCAG
Seq C2 exon
ATGAAGAAATTGAGATGACGAGGATGGCTGTGCAGTTTGAACTAGAGGACCTGAACATGAGACCTGACCCAGAGCCACTGCTCACCGAGATGATTCATGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026926-Pmpca:NM_173180:5
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=0.059
Domain overlap (PFAM):
C1:
PF0067515=Peptidase_M16=FE(21.2=100)
A:
NA
C2:
PF0067515=Peptidase_M16=FE(21.9=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:
GACACCACCATGTATGCTGTGT
R:
GAATCATCTCGGTGAGCAGTGG
Band lengths:
190-877
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: