GgaINT0124137 @ galGal4
Intron Retention
Gene
ENSGALG00000001950 | PMPCA
Description
mitochondrial-processing peptidase subunit alpha [Source:RefSeq peptide;Acc:NP_001006197]
Coordinates
chr17:7888190-7888538:-
Coord C1 exon
chr17:7888444-7888538
Coord A exon
chr17:7888291-7888443
Coord C2 exon
chr17:7888190-7888290
Length
153 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGG
5' ss Score
5.63
3' ss Seq
CTCTTTCTCTCTTATTACAGATG
3' ss Score
11.15
Exon sequences
Seq C1 exon
GGACACCATCATGTATGCTGTTTCTGCTGATGCCAAAGGCTTGGACACAGTGGTCAACTTGCTGGCCGACGTAGCCCTGCAGCCCAGGTTATCAG
Seq A exon
GTTTGGGAACATAATATCTGCCTCAACACAGAAACCCCAAAGCATGACTTTAGAATTCTCCAGTCGATTATGCTCATAAGGAAGTTTAAGAGTTCTCACGCAGCAAATGAGCGTCTCGCCTGGTGGTTGTTATCTCTTTCTCTCTTATTACAG
Seq C2 exon
ATGAAGAAATTGAGATGACTCGAATGGCTATACGGTTTGAGCTCGAGGACTTGAACATGAGACCTGATCCTGAGCCTCTCCTCACAGAGATGATCCATGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001950:ENSGALT00000003018:5
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=FE(21.2=100)
A:
NA
C2:
PF0067515=Peptidase_M16=FE(21.9=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:
GGACACCATCATGTATGCTGT
R:
CGCATGGATCATCTCTGTGAGG
Band lengths:
196-349
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]