RnoINT0028200 @ rn6
Intron Retention
Gene
ENSRNOG00000008031 | Cacna2d4
Description
calcium voltage-gated channel auxiliary subunit alpha2delta 4 [Source:RGD Symbol;Acc:1562038]
Coordinates
chr4:151397503-151397798:+
Coord C1 exon
chr4:151397503-151397547
Coord A exon
chr4:151397548-151397735
Coord C2 exon
chr4:151397736-151397798
Length
188 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
3' ss Seq
CGTCCTGACCTCTCCCCCAGGAT
3' ss Score
10.6
Exon sequences
Seq C1 exon
TGCAACACTGTAGAGGGGCCCTGCCCGAAGCGCTGCCAGGACACT
Seq A exon
GTAAGTTCTTCCCCAGAGCACAGGCAGAATCCGGTGTCCTGTGTCTCTCTGTGGACAACTTCTTTCCCTAATGCCCCCTTCCTGACCCTGACTGCAGGGTTCAGCCCTCCTCAGCTGCTAGAGTGAGTAGGAGGGCTGGAGCCAGCAATGGCCCTGGCTCTGACTTCCCGTCCTGACCTCTCCCCCAG
Seq C2 exon
GATCTGGACTGCTTCGTCATAGACAACAATGGCTTCATCCTGATCTCAGAGAGACCCCAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008031:ENSRNOT00000010746:29
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAACACTGTAGAGGGGCCCT
R:
CTCTTGGGGTCTCTCTGAGATCA
Band lengths:
106-294
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]