RnoINT0118317 @ rn6
Intron Retention
Gene
ENSRNOG00000004864 | Prpf40a
Description
pre-mRNA processing factor 40 homolog A [Source:RGD Symbol;Acc:1311401]
Coordinates
chr3:38697924-38698534:-
Coord C1 exon
chr3:38698426-38698534
Coord A exon
chr3:38697989-38698425
Coord C2 exon
chr3:38697924-38697988
Length
437 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTA
5' ss Score
7.04
3' ss Seq
TTCCTTTAAATAATTTTCAGCGG
3' ss Score
7.06
Exon sequences
Seq C1 exon
TTTTACTCCTAAAAAAGAAGAGGAAGAGAGCCAACCAGCAAAAAAAACATATACTTGGAATACAAAGGAGGAGGCAAAGCAAGCATTTAAAGAATTATTGAAAGAAAAG
Seq A exon
GTATTACATAGATTTTTTTCAAGTAACATATAATAATTTCCTAATAAATATTCACTTTAGCGCCTTTATTTAAAATACTAATCACTTGAACTGTTGTAACTGAAAGCAAACTAAATTTGTTGTGTTTTAATTAAACACTTTTGTGAAACTTAACAAGGTATTAATTTCACAAGCATATTTTTGCCTTGATATTTAAGATTTTTTCAAAAAGCTTAATCATTTTGTGGGTGAACTAATAGAGAAAAATATGGTTAAATTTCAGCATGAGTTTTTTTCTTCACAAAATTGTATCATTAAAAATGGTTTTAGATTTTATAAAAAATCTGCAAAAGGAGGTGCTTGATATTTACAGTGAGCATTATACTTGTCTTCCTGTAATACTACTGCTCTCTGTGTTCTTGTATGAAATACTAATTTTTCCTTTAAATAATTTTCAG
Seq C2 exon
CGGGTACCCTCCAATGCTTCATGGGAGCAAGCTATGAAAATGATCATAAATGATCCTCGGTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004864:ENSRNOT00000006549:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.757 A=NA C2=0.227
Domain overlap (PFAM):
C1:
PF0184614=FF=PU(24.0=32.4)
A:
NA
C2:
PF0184614=FF=FE(42.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]