RnoINT0114291 @ rn6
Intron Retention
Gene
ENSRNOG00000026775 | Pmpca
Description
peptidase, mitochondrial processing alpha subunit [Source:RGD Symbol;Acc:727897]
Coordinates
chr3:3835997-3836899:+
Coord C1 exon
chr3:3835997-3836091
Coord A exon
chr3:3836092-3836798
Coord C2 exon
chr3:3836799-3836899
Length
707 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGG
5' ss Score
5.63
3' ss Seq
CCTTGTCTGGACTTTTGCAGATG
3' ss Score
9.19
Exon sequences
Seq C1 exon
AGACACCACCATGTATGCTGTGTCTGCTGACAGCAAAGGCTTGGACACTGTGGTGGGCCTGCTGGCTGATGTGGTTCTGCACCCCCGCCTGACAG
Seq A exon
GTTTGGCTCTGGCTAGGTGGTTAGGAGGAGCTTTGGAAGGGCTGTAACTGTCGGGTGTGGGTGGAGGGCACTGTTAGAGCTGGGCACTCGTGTGCCAGACACTGAGAGTGCCACTGCTTAAGCAGACCCTTACAATTGTACATAATGCTTCATGCTTTCATATATGTAGAAGAAACTTTAAAGGGTTTACTAGAATTCTGTTCAGAAATATCCCTCATCCCATGTCTAAACAGGAGTTGCATGCCTACACAAGTTTCTCTTGAGTGGTCTCCTTTATTTTCCAAGCTTTGTGAGTGGCAGGACTTGGATTCCTATTAGGTGGACCCAGGAGGGAATAGCAGCTGGTCCCTGCCAGCTGCTCTTTGATCAGTTTCACAGCAGCTTGACCGGGTGTCTCCAGCTGAGGAATGGAACCCTGACTCCAGTGGTGTCTGTTTCCTAAATGTTGCCACATCCACCTTGTGTCCTCACAGGTGTGTTTTGGAACAGACAGCAGGTGAGGCAGCTGAGCTTGGAGCGGGTCCAGAGGTCTGCAGGACAGAGCAAGAGGCTGTGGTCCCTAACTTTGATCTGACACTCCCTTGCAGGCACTCCAGGGCTTTCCCCAGGAGATGACTCTAGCACCTGGCCAGGCTCAGCTGCTCTCAGGGTCAGTGCTGTCCTCTTCCTTGCTGGTTCAGACCCAATCCTTGTCTGGACTTTTGCAG
Seq C2 exon
ATGAGGAAATTGAGATGACGAGGATGGCTGTTCAGTTTGAACTTGAGGACCTGAACATGAGACCTGACCCAGAGCCACTGCTCACCGAGATGATTCATGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000026775:ENSRNOT00000031607:5
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=0.044
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
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACACCACCATGTATGCTGTGT
R:
GAATCATCTCGGTGAGCAGTGG
Band lengths:
190-897
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]