GgaINT0124138 @ galGal4
Intron Retention
Gene
ENSGALG00000001950 | PMPCA
Description
mitochondrial-processing peptidase subunit alpha [Source:RefSeq peptide;Acc:NP_001006197]
Coordinates
chr17:7887576-7888290:-
Coord C1 exon
chr17:7888190-7888290
Coord A exon
chr17:7887840-7888189
Coord C2 exon
chr17:7887576-7887839
Length
350 bp
Sequences
Splice sites
5' ss Seq
GCGGTAAAA
5' ss Score
4.94
3' ss Seq
TTCAATCTGTTTCCTTGTAGGCA
3' ss Score
10.31
Exon sequences
Seq C1 exon
ATGAAGAAATTGAGATGACTCGAATGGCTATACGGTTTGAGCTCGAGGACTTGAACATGAGACCTGATCCTGAGCCTCTCCTCACAGAGATGATCCATGCG
Seq A exon
GTAAAACACTGACAAGTCTGTCCTGTGTGCAGTACCCTGTGTGAGACACGCTGCATCCTCCTCCTCAGTTTCCTCCCAACTGCAGGGTTAATTTCAGACTTTGGAAAACAGATTCTTTTTGTGATCTCAGTGGTATGAGGGAGAATTTTGCTGCCTCTCCATTTTGAAGCTCTGTGTTTTATACATGAAAGATTTTAATCCCAGTTAGAAATGAGTTTAGATTACCTTTGTTGAGATGTTGATGGATGCTAATATTAGTGCTCAGTCTGTCCTTTCTCCTAAGTCTCAAACAGAAGGTGTAGATCGAGGGGGTGAACTAATATTTGCTACTTCAATCTGTTTCCTTGTAG
Seq C2 exon
GCAGCCTACAGAGAAAATACAGTTGGACTGAAGAGGTTCTGCCCAGTGGAAAACACTGACAAAATTGATCAGAAAGTCCTGCACTCATACCTGCGCAATTACTATACGCCGGACAGGATGGTGCTGGCAGGGGTGGGAATTGAGCACGAGCAGTTGGTGGAGTGTGCGAAGAAATATCTGCTTGGAGTGGAGCCAGTGTGGGGTAGTGCACAGACCAAGGAGGTGGACAGGTCTGTGGCTCAGTACACAGGAGGCATTGTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001950:ENSGALT00000003018:6
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(21.9=100)
A:
NA
C2:
PF0067515=Peptidase_M16=PD(9.9=17.0),PF0519316=Peptidase_M16_C=PU(33.5=76.1)
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:
TGACTCGAATGGCTATACGGT
R:
ATGCCTCCTGTGTACTGAGCC
Band lengths:
343-693
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]