MmuINT0027889 @ mm9
Intron Retention
Gene
ENSMUSG00000020882 | Cacnb1
Description
calcium channel, voltage-dependent, beta 1 subunit [Source:MGI Symbol;Acc:MGI:102522]
Coordinates
chr11:97872657-97873256:-
Coord C1 exon
chr11:97873180-97873256
Coord A exon
chr11:97872812-97873179
Coord C2 exon
chr11:97872657-97872811
Length
368 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGA
5' ss Score
8.24
3' ss Seq
CTCCTTCCTGACTGGTCCAGGTA
3' ss Score
7.75
Exon sequences
Seq C1 exon
CAAGTCAGGTGACAACTCCAGTTCCAGTCTGGGAGATGTGGTGACTGGCACCCGCCGCCCCACACCCCCTGCCAGTG
Seq A exon
GTAAGAGCCGCCTGCAATCCAGGGGAGGGAGAGTTTTTCCCCCGGTGGGGTGGTCTCTCCCAGGGGTGGCCCCTCCTCCCTGCAGTAGGAGGTACCCCAATTCTGAGTCCCCCAAACACATGCAGTAGTACCCCTCCATTAAGGATAGGCTATCCTCCGAGCTGAGTCTGTCATGTCTCTCCTGTCCCTCTCTGTGGTAGCTCCATCTCTCTGCCTTCCCCCATACCCCCCATCTCCCATCCATTCTCCTAGCCCCGTTCCATTCACTTCTTCTTTCTTTCTTCCCCATCCCATCCTTGTGTTCTGCGCTGTGTCTCCGTGCTCATCTCCCTCCTCCTCTCCCTTCACCTCCTTCCTGACTGGTCCAG
Seq C2 exon
GTAATGAAATGACTAACTTTGCCTTTGAGCTAGACCCCCTAGAGTTAGAGGAGGAGGAGGCAGAGCTAGGGGAGCACGGCGGCTCAGCCAAGACTAGCGTGAGCAGTGTCACCACGCCGCCACCCCACGGCAAGCGCATCCCCTTCTTTAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020882-Cacnb1:NM_001159320:5
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.750
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGGTGACAACTCCAGTTCCA
R:
TAAAGAAGGGGATGCGCTTGC
Band lengths:
222-590
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: