RnoINT0028229 @ rn6
Intron Retention
Gene
ENSRNOG00000004518 | Cacnb1
Description
calcium voltage-gated channel auxiliary subunit beta 1 [Source:RGD Symbol;Acc:68382]
Coordinates
chr10:85962403-85962760:-
Coord C1 exon
chr10:85962702-85962760
Coord A exon
chr10:85962513-85962701
Coord C2 exon
chr10:85962403-85962512
Length
189 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
TTCCCCGCCTGGTCCTTCAGGAT
3' ss Score
9.51
Exon sequences
Seq C1 exon
GTAACTGACATGATGCAGAAGGCGTTGTTTGACTTCTTGAAGCATCGGTTTGATGGCAG
Seq A exon
GTAGGACCCTGAGAGTTGACTCTCCACTCGACTGTGGCTCCTTCCTCCCACTTGGGGGTACCCAGGATGTCTAAAGGGACCACCCTGGGACTTTTAGACAGAGACGAGGGCGGCAGGCCTGGAGTCTGTGAGTGGACGGTATGTTCTTGCCCACCCAACCCCTGACCCCTTCCCCGCCTGGTCCTTCAG
Seq C2 exon
GATTTCCATCACCCGGGTAACGGCTGACATTTCCCTGGCCAAGCGCTCGGTCCTCAACAACCCCAGCAAACACATTATCATCGAGCGCTCCAACACTCGCTCCAGCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004518:ENSRNOT00000006098:9
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=0.026
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
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACTGACATGATGCAGAAGGC
R:
CAGGCTGGAGCGAGTGTTG
Band lengths:
166-355
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]