MmuINT0027890 @ mm9
Intron Retention
Gene
ENSMUSG00000020882 | Cacnb1
Description
calcium channel, voltage-dependent, beta 1 subunit [Source:MGI Symbol;Acc:MGI:102522]
Coordinates
chr11:97871610-97872811:-
Coord C1 exon
chr11:97872657-97872811
Coord A exon
chr11:97871691-97872656
Coord C2 exon
chr11:97871610-97871690
Length
966 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATT
5' ss Score
8.83
3' ss Seq
CTTCCCTGCTTCCCTCCCAGACA
3' ss Score
10.6
Exon sequences
Seq C1 exon
GTAATGAAATGACTAACTTTGCCTTTGAGCTAGACCCCCTAGAGTTAGAGGAGGAGGAGGCAGAGCTAGGGGAGCACGGCGGCTCAGCCAAGACTAGCGTGAGCAGTGTCACCACGCCGCCACCCCACGGCAAGCGCATCCCCTTCTTTAAGAAG
Seq A exon
GTAATTCTGTCTGGTTTCCTGTAAGGGGAGTCAGGACCCAGCTGTTGGCAAAGAAAAGAGGCTGGAGTGGTCCAGATGTGGTCCATTCTATACATCAAGCCTGTGGGCTTTCTGCCTAGCTGGATGTACGGGGCTCGGCTGGGCTGGAACCATACCTCTCCTTATAAAACCCCATTCCCCAGTTCCTTAAGAAGAGGCAGCTCTTGCTTTGTCTAGTAATAGACATAGCCAGTTTTGTCCTCATGACTAATGTAGGCCCTGCCCTGAGTTCATTCATCTGCCCCGTTCCAACTCTTGAGTAGATGGATGTCCAACAGCCTCTCCTAGATACAGAACAGGGAATCCTTAAAATATACAGGAAGATAAACAAGGGTGGGCCCTGGATTAGGGGCTTCCAATGTCTCTAGCTCTTTTCAGAGCTAGATCTGGAAGGGCAGGAGGCTTGACTCACTAGTCTCAAGTCCACACTGGATGACTGTCCGTCCTGCCTCCAAGGCCACCTTTGGCTCCCCTGTGGCACGGGGTCCCGTCCCCTTTCTGGCTCTGTCTGTCACTAACACGCATGCCTGTTATTTTTCTTGGTCTACCCGCTCTCTTGCCCCTTCTCCTGTCCTGGCTCCTTCCTGGCCCTCTACCCCTGCCTGGTGCCTTCCCCTCTCTCCTTCCCTTCCCCTTCCTGGCAATCTCTGGACCCAGCCAAACAGAAGCAGAAATCGGTGAGTATGGCAGCTTTCTGTGTCTGCCCCACTGGGGATGAGCTGGGGAGGGGCTTCTAACACCTGTTTCCAGATCTTTCTCCCTTTACCCTCCTTCCTGGTCCTGCCTGGCCATCCCCCACTCCCAATCCTCTGACACCAACATTTGGGCTCTGGGGTCAGAGGGAGGCTGCATGGGGAGCCTAGAACTTGGGGAGAGGGGCTGATGCCATCTCTACTTTGGGGTTTCCCTTCCCTGCTTCCCTCCCAG
Seq C2 exon
ACAGAGCACGTGCCCCCCTATGACGTGGTGCCTTCCATGAGGCCCATCATCCTGGTGGGACCGTCGCTCAAGGGCTATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020882-Cacnb1:NM_001159320:6
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.750 A=NA C2=0.095
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0062516=Guanylate_kin=PU(8.3=55.6)
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:
TGAAATGACTAACTTTGCCTTTGAGC
R:
CTCATAGCCCTTGAGCGACG
Band lengths:
232-1198
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: