RnoINT0028253 @ rn6
Intron Retention
Gene
ENSRNOG00000054274 | Cacnb3
Description
calcium voltage-gated channel auxiliary subunit beta 3 [Source:RGD Symbol;Acc:2248]
Coordinates
chr7:140321941-140322436:+
Coord C1 exon
chr7:140321941-140322050
Coord A exon
chr7:140322051-140322284
Coord C2 exon
chr7:140322285-140322436
Length
234 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGG
5' ss Score
6.9
3' ss Seq
GAGCTGCTCCCCTTCCTCAGCTG
3' ss Score
6.49
Exon sequences
Seq C1 exon
GATCTCCATCACCCGCGTCACGGCTGACCTCTCACTGGCCAAGCGCTCTGTGCTCAACAATCCTGGCAAGAGGACCATCATCGAGCGCTCTTCTGCCCGCTCCAGCATTG
Seq A exon
GTGAGGAGTCCTTTGTCCCTGGCTCTCTGCCCGCTTGATGCTAGTGAAAACCTTGAACTCCTTGTGGTCTTGCCCACGCCCCACCACCTGTCCCAAGTGCTGCCCTCCTCCCTTGCCCAGTCCACTGCCCGCCCAGGCTTGCTGGTCCGTTCCATTCGCCGCCGTGTAGCAGCTCTGGAAGCCCTGGCAGTTAGCAGTGGCCAGAGCCCCTGGTGAGCTGCTCCCCTTCCTCAG
Seq C2 exon
CTGAGGTGCAGAGTGAGATTGAGCGCATATTCGAGCTGGCCAAATCCCTGCAGCTAGTGGTGTTGGATGCTGACACCATCAACCACCCAGCACAGCTAGCCAAGACCTCACTGGCCCCCATCATCGTCTTCGTCAAAGTGTCCTCGCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000054274:ENSRNOT00000081206:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.105 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
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATCTCCATCACCCGCGTCA
R:
TTTGGCGAGGACACTTTGACG
Band lengths:
261-495
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]