RnoINT0028243 @ rn6
Intron Retention
Gene
ENSRNOG00000054274 | Cacnb3
Description
calcium voltage-gated channel auxiliary subunit beta 3 [Source:RGD Symbol;Acc:2248]
Coordinates
chr7:140322285-140322763:+
Coord C1 exon
chr7:140322285-140322436
Coord A exon
chr7:140322437-140322667
Coord C2 exon
chr7:140322668-140322763
Length
231 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
TCCCTGCCCTTCTCCTCCAGGTA
3' ss Score
13.18
Exon sequences
Seq C1 exon
CTGAGGTGCAGAGTGAGATTGAGCGCATATTCGAGCTGGCCAAATCCCTGCAGCTAGTGGTGTTGGATGCTGACACCATCAACCACCCAGCACAGCTAGCCAAGACCTCACTGGCCCCCATCATCGTCTTCGTCAAAGTGTCCTCGCCAAAG
Seq A exon
GTAAGTGAACTGGGGTCACTGGGGTCCCCTAGAATACAGTGCACCTCTGCCTGGGTCTTCCCTGGAGTGACCGGTTCCTTTTCCTGCCATTCCTTAACACCCCGAGTCCTCCTCACCCAGTATAAATGTCATTCATAGCACAAGGTGGGAATTGAGCCTAGTTCCTTCCAGGCTCAGATCTCACCAGAGCCCACGAGAAACGCCACGCCCATCCCTGCCCTTCTCCTCCAG
Seq C2 exon
GTACTGCAGCGACTGATCCGCTCCAGGGGGAAGTCCCAGATGAAGCACCTCACTGTACAGATGATGGCATATGATAAGCTGGTTCAGTGCCCACCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000054274:ENSRNOT00000081206:10
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:
PF0062516=Guanylate_kin=FE(27.6=100)
A:
NA
C2:
PF0062516=Guanylate_kin=FE(17.1=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:
GAGGTGCAGAGTGAGATTGAGC
R:
GTGGGCACTGAACCAGCTTAT
Band lengths:
244-475
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]