RnoINT0028250 @ rn6
Intron Retention
Gene
ENSRNOG00000054274 | Cacnb3
Description
calcium voltage-gated channel auxiliary subunit beta 3 [Source:RGD Symbol;Acc:2248]
Coordinates
chr7:140321282-140321576:+
Coord C1 exon
chr7:140321282-140321301
Coord A exon
chr7:140321302-140321495
Coord C2 exon
chr7:140321496-140321576
Length
194 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
ACCTCCTGGCCATTCTGCAGGCG
3' ss Score
6.37
Exon sequences
Seq C1 exon
CCAAGCAGAAGCAAAAGCAG
Seq A exon
GTGAGTCAGAAAGGGACCTGGGCCGGGGGGGTCATGGATTTTGGCTCTGGGGACCCTCCTGGTCAGCCACTGCTGACATCAACAGAACAGAGGGAGGGTGCCCAGAACTCTCCACTCTGCCCCCAGAGCAGTCAGGCCTAAAGTGGGCACTGACCGAGACCAAGATTTTGTCTGACCTCCTGGCCATTCTGCAG
Seq C2 exon
GCGGAACATGTCCCCCCGTATGATGTGGTGCCCTCCATGCGGCCTGTGGTGCTGGTGGGACCCTCTCTGAAAGGTTATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000054274:ENSRNOT00000081206:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.185
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0062516=Guanylate_kin=PU(8.3=55.6)
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:
CCAAGCAGAAGCAAAAGCAG
R:
ATAACCTTTCAGAGAGGGTCCCA
Band lengths:
98-292
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]