RnoINT0028247 @ rn6
Intron Retention
Gene
ENSRNOG00000054274 | Cacnb3
Description
calcium voltage-gated channel auxiliary subunit beta 3 [Source:RGD Symbol;Acc:2248]
Coordinates
chr7:140320105-140320756:+
Coord C1 exon
chr7:140320105-140320227
Coord A exon
chr7:140320228-140320640
Coord C2 exon
chr7:140320641-140320756
Length
413 bp
Sequences
Splice sites
5' ss Seq
GAGGTAATG
5' ss Score
8.73
3' ss Seq
CTCTTCTTATTCCCTCCCAGAAG
3' ss Score
8.97
Exon sequences
Seq C1 exon
CACAAACCTGTGGCATTTGCTGTGAGGACCAATGTCAGCTACTGTGGAGTTCTGGATGAGGAATGCCCAGTCCAGGGCTCTGGAGTCAACTTCGAGGCCAAAGATTTTCTGCACATTAAAGAG
Seq A exon
GTAATGAACCTTACTCTCCCCGGAAGCCTACTCTAACACTTAATTCTTCTGTTTGCTGTCACGGCCTCCAGTGCCTCTTTAGTTCTATATCTAAAACAAGCCAGCTTCTCTGCGTGCATGCCTGTATGCCCCTTACACGGGGCCTGATCCCTCGGTTCCCACCATTCTCAGACCTGGCTTGGTCCTGAGTTCTGTCTGGGAGGGTAGAGTAACTAAGCAACCAGTGGTCTTGTGGTGACATCCGGGATTCCACACCCTGAAGCGCAACGGCCTGCGGCTCGAACCTGGCTGTCTTGTTCTATGACACCATTACACGTTCCTTGGCCCTCCCTCTGCTTTCCTTGTGCCAGCGTCCCAGAGTCCTCCCTGAGGAGCATCTCTCACTGCTCTTCCCTCTTCTTATTCCCTCCCAG
Seq C2 exon
AAGTACAGCAATGACTGGTGGATCGGGAGGCTAGTGAAAGAAGGTGGCGATATTGCCTTCATCCCCAGCCCCCAACGCCTGGAGAGCATCCGGCTCAAACAGGAACAGAAGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000054274:ENSRNOT00000081206:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.024 A=NA C2=0.231
Domain overlap (PFAM):
C1:
PF120523=VGCC_beta4Aa_N=PD(2.3=2.4)
A:
NA
C2:
NO
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:
ACAAACCTGTGGCATTTGCTG
R:
CTGGCCTTCTGTTCCTGTTTGA
Band lengths:
238-651
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]