RnoINT0114292 @ rn6
Intron Retention
Gene
ENSRNOG00000026775 | Pmpca
Description
peptidase, mitochondrial processing alpha subunit [Source:RGD Symbol;Acc:727897]
Coordinates
chr3:3836799-3837648:+
Coord C1 exon
chr3:3836799-3836899
Coord A exon
chr3:3836900-3837384
Coord C2 exon
chr3:3837385-3837648
Length
485 bp
Sequences
Splice sites
5' ss Seq
GAAGTAACA
5' ss Score
1.06
3' ss Seq
TCTCCTTCTGCCTGCCTCAGGCT
3' ss Score
8.48
Exon sequences
Seq C1 exon
ATGAGGAAATTGAGATGACGAGGATGGCTGTTCAGTTTGAACTTGAGGACCTGAACATGAGACCTGACCCAGAGCCACTGCTCACCGAGATGATTCATGAA
Seq A exon
GTAACATAGGAGGCCACATGTGCCTCTCTCCCTGCTGTTGGCCCCGCGGGTGGTGAGGTTTACAGAACAGACTTAGCTTTGTGGGTTTTTTGTTTTTGTTGTTGGTTTTTTGAGATAGTTGCTGTTTGGTTCAGATTTGGTCTTAAATTCATGACCTTAGCTTCCTGAGTGCTAAGATGGCAGGCACGAGTGGCACCTCTCAGAGCTGTATTCTTCTGAGCCTGCCATCCCTGCAGTGGAACTGTTCTCACATAGGTTATCACAGTCTTTACCATTTGCGTCTGTTTGGCTCTTCTATGTGTTTTTTCAATTTTTCTTTCTGAGGTAAAACTTGCTGCTTCTAGAAACACAGAAATGGAGCCAAACTCCAGATAATGCCCAGCCTTTTGCTGCTGATGTGTTGTAGGCCATGTTGGGGAGTCCTGCCTCAGAGGACATGATTTTTTTTTTCTCACTTGGGTTTGTTCTCCTTCTGCCTGCCTCAG
Seq C2 exon
GCTGCTTTTAGGGAGAACACGGTGGGCCTGCACCGGTTTTGTCCTGTAGAGAACATAGGGAAGATTGACCGAGAAGTGCTGCATTCCTACCTGAAGAACTACTACACCCCCGACCGCATGGTGCTTGCTGGAGTGGGCGTGGAGCATGAGCACCTGGTCGAATGTGCCAGAAAGTACCTCCTGGGAGTGCAGCCTGCCTGGGGAGCTCCGGGAGCTGTGGATGTTGACAGCTCAGTGGCACAGTACACGGGGGGGATCATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000026775:ENSRNOT00000031607:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.044 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
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAGATGACGAGGATGGCTGT
R:
CCCGTGTACTGTGCCACTGAG
Band lengths:
342-827
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]