RnoINT0114284 @ rn6
Intron Retention
Gene
ENSRNOG00000026775 | Pmpca
Description
peptidase, mitochondrial processing alpha subunit [Source:RGD Symbol;Acc:727897]
Coordinates
chr3:3834078-3835065:+
Coord C1 exon
chr3:3834078-3834335
Coord A exon
chr3:3834336-3834862
Coord C2 exon
chr3:3834863-3835065
Length
527 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
TTTTGGTTGCTTTGCTGTAGGTT
3' ss Score
8.98
Exon sequences
Seq C1 exon
CGCGATAGTGGGGGCGCGCCCTGCCGCCGCGCGTAGCCCGACATCGCCGCGCCCTAACCCGGCCGCGGCCCCATGGCCCACAACGCCGTCGCCAGCCCCTGCCTCATCCGGCGCGGCCGGCCGGAAGCCTGCGCCGAACGCCGTGGGGCGGGGTCGGAAGCGGAAGTGACCGCAGAAGCGCGGCGGCGCGATGGCGACGGCAGTGTGGGCGGCTGCGCGGCTACTTCGGGGTTCTGCGGCGCTGTGCGCGCGGCCCAA
Seq A exon
GTGAGTCAAAACGCGTCTCTCGGTGCGAGGAGGGGAGGACGGGGGAAGTAGGTAACGGGGGGAACTGGAAGAGGAGGATGGGCCCTGGAGCAGAGCACAGGCGCCGTGGGCCTGGAGAACGAGCCGGGGACTGGAACCTGGTTGAAGGGGTCGGCAGAGTCACTCGGCTGGAGCCTTCCAGACCAAGGCAAAGCTCTGAGGGGCCGGGCTAGCCCAGACCCATATGCCCAGGAACTGGTTTCTCACACAGCCTACCGTTCCGAGTGGGCAATGAAGATCCAAAGATCGGGGCTGGAGAGATGGCTGGCGCAGCAGTTAAGCCTACTGATTGTTTCCCCTGGGTTTGGTTACCAGCACCCACATGGTGCCTCACAACCGTCCGTAATTCCACTTCCCAGCGATCCAAAGCCCTCTTCTGACCTCCATGGACACCAGGCATACCTGTGTGATGAGCCTTCATCTGTGCAGGCAGACACTCAAACACATAAGATACGAATAAATAGCTATTTTTGGTTGCTTTGCTGTAG
Seq C2 exon
GTTCGGTTCTCCTGCACACAGACGGTTCAGCAGTGGCGCCACCTACCCCAACATCCCTCTCTCTTCTCCCTTGCCCGGAGTGCCCAAGCCTATTTTTGCTACAGTTGATGGACAGGAAAAGTTTGAAACCAAAGTCACCACTCTGGACAATGGGCTTCGTGTGGCATCTCAAAATAAGTTTGGACAGTTCTGTACCTTAGGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000026775:ENSRNOT00000031607:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0067515=Peptidase_M16=PU(9.9=21.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGCCCCTGCCTCATCC
R:
ATTTTGAGATGCCACACGAAGC
Band lengths:
342-869
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]