GgaINT0124134 @ galGal4
Intron Retention
Gene
ENSGALG00000001950 | PMPCA
Description
mitochondrial-processing peptidase subunit alpha [Source:RefSeq peptide;Acc:NP_001006197]
Coordinates
chr17:7889172-7889533:-
Coord C1 exon
chr17:7889331-7889533
Coord A exon
chr17:7889252-7889330
Coord C2 exon
chr17:7889172-7889251
Length
79 bp
Sequences
Splice sites
5' ss Seq
GCCGTGAGT
5' ss Score
8.56
3' ss Seq
CTCGTGCCTTCCGCCGCCAGTCC
3' ss Score
7.47
Exon sequences
Seq C1 exon
GTGCGGGCTGGCGGCCGCCCGGAGCTACAGCGGAGGCGGCTCCTACCCCAACGTGTCTCTGACGTGCCCGCTGCCCGGCGTGCCCAAAGCCGTGTTCGCGGCCGCCGAGGGCCGGGAGCGCTTCGAGACGCGGGTGACGGTGCTGGAGAACGGGCTGCGCGTCGCCTCCCAGAACAAATTCGGGCAGTTCTGCACCGTGGGCC
Seq A exon
GTGAGTGTTGGGGGGCGGGCGGGGCGGGGGGCCCTTCGCCGGGCCGGCAGCGCGCTGACCTCGTGCCTTCCGCCGCCAG
Seq C2 exon
TCCTCATCAACTCCGGATCGCGGCACGAAGCGAAGTACCTGAGCGGCATCGCGCACTTCCTGGAGAAGTTGGCGTTCTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001950:ENSGALT00000003018:2
Average complexity
IR
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=PU(9.9=21.7)
A:
NA
C2:
PF0067515=Peptidase_M16=FE(17.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTACCCCAACGTGTCTCTGA
R:
GCGATCCGGAGTTGATGAGGA
Band lengths:
183-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]