MmuINT0122943 @ mm9
Intron Retention
Gene
ENSMUSG00000026926 | Pmpca
Description
peptidase (mitochondrial processing) alpha [Source:MGI Symbol;Acc:MGI:1918568]
Coordinates
chr2:26247932-26248518:+
Coord C1 exon
chr2:26247932-26248195
Coord A exon
chr2:26248196-26248425
Coord C2 exon
chr2:26248426-26248518
Length
230 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACT
5' ss Score
9.01
3' ss Seq
ATGTGTCTGGTTGTTTACAGGTG
3' ss Score
10.69
Exon sequences
Seq C1 exon
GCTGCTTTTAGGGAGAACACAGTGGGTCTGCACCGGTTCTGCCCTGTAGAGAACATAGCGAAGATCGATCGGGAAGTGCTGCACTCCTACCTAAAGAACTACTACACCCCTGACCGCATGGTGCTTGCTGGGGTGGGCGTGGAGCATGAGCACCTAGTAGAATGTGCCAGAAAGTACCTCGTGGGAGCCGAGCCTGCCTGGGGAGCCCCTGGAACGGTGGACGTTGACAGATCAGTGGCACAGTACACTGGGGGGATCATCAAG
Seq A exon
GTAACTTGGCAGGAAAAGTCTCAGGACTTGTGCCATGTATTCTCTGGGTGTGTTGATGAATGTGTTTATGCTTCTCCTTAGTGTACAATCCAGCACTATGACAGTATGAACACATCCCCTGTTCAAAGCAAGAGGTGACAGGGCTGAGGTCACCTGGTGTCTGATTGAGTGTGGCTGTTTTTGTAGTAGATGTTTGCTGGCTTTATTGACATGTGTCTGGTTGTTTACAG
Seq C2 exon
GTGGAAAGAGACATGTCAAATGTCAGCCTTGGCCCAACCCCAATTCCAGAGCTCACACACATCATGGTGGGACTGGAGAGCTGTTCCTTCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026926-Pmpca:NM_173180:7
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=PD(9.9=17.0),PF0519316=Peptidase_M16_C=PU(33.5=76.1)
A:
NA
C2:
PF0519316=Peptidase_M16_C=FE(15.0=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:
CCGGTTCTGCCCTGTAGAGAA
R:
CCAGTCCCACCATGATGTGTG
Band lengths:
308-538
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: