RnoINT0028252 @ rn6
Intron Retention
Gene
ENSRNOG00000054274 | Cacnb3
Description
calcium voltage-gated channel auxiliary subunit beta 3 [Source:RGD Symbol;Acc:2248]
Coordinates
chr7:140321713-140322050:+
Coord C1 exon
chr7:140321713-140321771
Coord A exon
chr7:140321772-140321940
Coord C2 exon
chr7:140321941-140322050
Length
169 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
TGTGTGTTCCTCACACCCAGGAT
3' ss Score
8.5
Exon sequences
Seq C1 exon
GTCACAGACATGATGCAGAAGGCTCTCTTCGACTTCCTTAAACACAGGTTTGATGGCAG
Seq A exon
GTAAGCCGTCCTGGAGGGGAGTGAGAATCGGGAGGAAAATAATTCCCCCCCGCATGCATGCATGCCCAGAGCTGGTCTCCTCTCAAGGAGAATTAGAGAGCTGGTGTGGGGAGTCCGTGACTTAGATGGCGTGTGTGTGTGTGTGTGTGTGTGTGTTCCTCACACCCAG
Seq C2 exon
GATCTCCATCACCCGCGTCACGGCTGACCTCTCACTGGCCAAGCGCTCTGTGCTCAACAATCCTGGCAAGAGGACCATCATCGAGCGCTCTTCTGCCCGCTCCAGCATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000054274:ENSRNOT00000081206:8
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=0.105
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=FE(10.5=100)
A:
NA
C2:
PF0062516=Guanylate_kin=FE(20.4=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:
CACAGACATGATGCAGAAGGCT
R:
AATGCTGGAGCGGGCAGAA
Band lengths:
166-335
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]