RnoINT0028218 @ rn6
Intron Retention
Gene
ENSRNOG00000004518 | Cacnb1
Description
calcium voltage-gated channel auxiliary subunit beta 1 [Source:RGD Symbol;Acc:68382]
Coordinates
chr10:85962111-85962512:-
Coord C1 exon
chr10:85962403-85962512
Coord A exon
chr10:85962263-85962402
Coord C2 exon
chr10:85962111-85962262
Length
140 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGC
5' ss Score
7.23
3' ss Seq
TCTCCGTCCCCATGCCCCAGCTG
3' ss Score
7.05
Exon sequences
Seq C1 exon
GATTTCCATCACCCGGGTAACGGCTGACATTTCCCTGGCCAAGCGCTCGGTCCTCAACAACCCCAGCAAACACATTATCATCGAGCGCTCCAACACTCGCTCCAGCCTGG
Seq A exon
GTGAGCCACCACCTACTCTCCCCGTCCCAGGCTGTCAGGGTGGGTGGGGTGTACAGTACTGGGAAGTCTCCAGAAGTTTCCCTTCGCTCCACTGCCTCCTGGGGGTGCCTTACGATCCCCTCTCCGTCCCCATGCCCCAG
Seq C2 exon
CTGAGGTACAGAGTGAAATCGAGCGGATCTTCGAGCTGGCCCGGACCTTGCAGCTGGTTGCCCTGGACGCCGACACCATCAACCACCCAGCCCAGCTCTCTAAAACCTCGCTGGCCCCCATCATTGTTTACATCAAGATCACATCCCCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004518:ENSRNOT00000006098:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=FE(20.4=100)
A:
NA
C2:
PF0062516=Guanylate_kin=FE(27.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTTCCATCACCCGGGTAACG
R:
ATGTAAACAATGATGGGGGCCA
Band lengths:
242-382
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]