GgaINT0124143 @ galGal4
Intron Retention
Gene
ENSGALG00000001950 | PMPCA
Description
mitochondrial-processing peptidase subunit alpha [Source:RefSeq peptide;Acc:NP_001006197]
Coordinates
chr17:7885603-7886139:-
Coord C1 exon
chr17:7886077-7886139
Coord A exon
chr17:7885748-7886076
Coord C2 exon
chr17:7885603-7885747
Length
329 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAGC
5' ss Score
5.66
3' ss Seq
TATTTGCTGCTCATTTGCAGGTA
3' ss Score
8.99
Exon sequences
Seq C1 exon
GTCCGAGAGATGGTGGAAATCATCACAAGAGAATTCATTCTAATGGCAGGAGCAATAGGAGAG
Seq A exon
GTCAGCAACCTAACCTGCAGACTATGTAGATGATCTTTGAGCTGAAGTATTGCATTGCATTGGCCTTGCCGGGGTGAAGTATTTCTTGTATTTCCATAAAAGAATGCCTTCATTTTAGCAGCATGTTCACAAAGAGGGAGGTCTCTGCACAACTCTGAAGCGCTCCACAGCTCTTCACAACAATCTTTTTAGAGCAAAAGAAAGGCCATTTGGGCTGGAATATGGCACTAATCCAACCACTTGTGTTTTCCAGAGAACGTTGGTAGCTTGTATAAGAAAGCAGTGGCCAGTCCTTTTAGAAGATGTTTGTATTTGCTGCTCATTTGCAG
Seq C2 exon
GTAGAACTTGAGCGAGCAAAAACACAACTCAAGTCTATGCTCATGATGAACCTTGAGTCTAGACCAGTTATCTTTGAAGACGTGGGAAGGCAAGTGCTGGCAACGAACACAAGGAAACTACCTCATGAGCTTTGTGCACTGATCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001950:ENSGALT00000003018:11
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:
PF0519316=Peptidase_M16_C=FE(10.0=100)
A:
NA
C2:
PF0519316=Peptidase_M16_C=PD(4.5=18.4)
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:
GTCCGAGAGATGGTGGAAATCA
R:
TGATCAGTGCACAAAGCTCATGA
Band lengths:
208-537
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]