MmuINT0122939 @ mm9
Intron Retention
Gene
ENSMUSG00000026926 | Pmpca
Description
peptidase (mitochondrial processing) alpha [Source:MGI Symbol;Acc:MGI:1918568]
Coordinates
chr2:26245751-26246097:+
Coord C1 exon
chr2:26245751-26245830
Coord A exon
chr2:26245831-26246014
Coord C2 exon
chr2:26246015-26246097
Length
184 bp
Sequences
Splice sites
5' ss Seq
TCGGTCAGT
5' ss Score
7.03
3' ss Seq
AAGCTTAATTATTTTTATAGTCC
3' ss Score
2.6
Exon sequences
Seq C1 exon
TTCTTATTAATTCAGGATCACGATATGAAGCGAAATATCTTAGTGGAATAGCTCATTTTTTGGAAAAATTGGCATTTTCG
Seq A exon
GTCAGTGTCTAATTTGTAATTTTTATAAGTTTTCAGTTTTCCTTTTTAAGAACTTGTATTAGTTAAGGATCTGAATATGAAGTTGGTGCTCACAAAAGACTTCTGACATGATTTTGTGTGTTTGAAAGCAAATGTACACTTAATGGATTTTGGGTTATTTACTTAAGCTTAATTATTTTTATAG
Seq C2 exon
TCCACTGCTCGATTTGACAGCAAAGACGAAATCCTGCTTACGCTGGAAAAACATGGTGGTATCTGTGACTGCCAGACCTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026926-Pmpca:NM_173180:3
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:
PF0067515=Peptidase_M16=FE(17.2=100),PF109053=DUF2695=PU(10.0=11.1)
A:
NA
C2:
PF0067515=Peptidase_M16=FE(17.9=100),PF109053=DUF2695=PD(83.3=89.3)
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:
ATTCAGGATCACGATATGAAGCGA
R:
CTTGAGGTCTGGCAGTCACAG
Band lengths:
154-338
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: