MmuINT0027906 @ mm9
Intron Retention
Gene
ENSMUSG00000057914 | Cacnb2
Description
calcium channel, voltage-dependent, beta 2 subunit [Source:MGI Symbol;Acc:MGI:894644]
Coordinates
chr2:14904415-14906066:+
Coord C1 exon
chr2:14904415-14904510
Coord A exon
chr2:14904511-14905877
Coord C2 exon
chr2:14905878-14906066
Length
1367 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGT
5' ss Score
10.91
3' ss Seq
ATCTGAAATGCTTACTTTAGCAG
3' ss Score
1.74
Exon sequences
Seq C1 exon
GTTTTACAAAGGTTGATAAAATCTCGAGGGAAATCTCAAGCAAAACACCTCAATGTCCAGATGGTAGCAGCTGATAAACTGGCCCAATGTCCTCCG
Seq A exon
GTAAGTTATCTACATGGTCCAAACAGCTTAAGCGATTGGACCTACATTTTAGAAACAATGTAGTTACATATCTGTGGGAAGAGACTCAGTCTCACTAACGATGGCATTCACTCTAAAGAGGTATGCCAGAGTCTGTATGACCATGTGTCTAGAGCATATGTAGGCCAGGTAATAGTCACCCTTCCAAAAACTCTACAAACATCCTGTACAGACCTCACTTCCTATTAAAGGACCGTGGTTTGTAAGATGGACCTCTTCAGAGTGTGGGTCTTATCCACTTCTAGCCACATGCAACATGTTGTCTGAAAAAAAACAACTTGGACCATGTCAAACTAAACACTGAATTTCATGCATAAGAATACCACTGTGAGCATGCTTTCCACAGTGCACACTGAGGTCATAGGATAACATGGGTGTTGGTTTCCACCTTCCATCTTCAGCCAAGGCATCTTGTTGGTCAGAGTATACAACAGGCTAGCTGGCTGGCTAATTCCCAGGATTCTCTTGTCTATGCCCTGTGTTCTTGTAGGAGTGCTGGGATTACCAAAACTCAGTGTTGGCTTTGGCATGGGTTCTAGAGATTCAAACCAGGGACCCCACAGTTGCACAGCAAGCACTTTCCCCAGTGAGTTATATCACCAGCCCCAAACCAAATTTTTAAACAGTAAGTTTCCCAGACATACATTCCTACTTTTATATATTATACTTTGGGGCTATAGATCCAACCTAGTATTCATTCAAGTACAACTATGTTGGAAAAACTGTATAAAAGATACAATTATGAATTTGACTAATTTAAATTAATGTTATATTTCTTGATCAATAATTTTAAATTTTCAAAAGTAAAGGACCTCATCTCTCACTGACCTCTCCTCACACTGAAGTGTTAAATTTGGATCATGTCAAAATGTTGTTTGGGCTATTTTGGGCCAAAATGCATGAACTAATCTTGCCTCTTAGCTTTCAGAGCTTTCTACAGTCTGTATCAAGAACAAGCACTCTTCTAACTGTTAAGATTTTTCATGTTTTTCTACCACAGTATCAGATTTTCACAACTGATAAATAACTCTTCTGCACTGTCCTACCAATCATGCTGACAGTCCATTTTTGAGCAGTTAAACCACTCCGTGTTTTAATTCAGGATTTGAGGACACACACACGCACACACACACGCGCGCACACACACACACACACACACACACACACACACACACACAAACAAGCTAAGAGAGTCAGCCGATGGAAAAGGAAATACCAGGCAAGAATAAATACAATGGGCAAGGGCTGTCCTCTGCTCATGGATTTGGGGAGAAGACAGAACTTGGTCCTGGGTTGCGTTAATGGCCTATCTGAAATGCTTACTTTAG
Seq C2 exon
CAGGAATCATTTGATGTGATCTTGGATGAGAACCAGCTGGAGGACGCTTGTGAGCATCTTGCCGACTATCTGGAGGCATACTGGAAGGCCACCCACCCTCCCAGCGGTAACCTCCCCAACCCTCTGCTTAGCCGGACTTTAGCCTCCTCAACTTTACCTCTGAGCCCCACCCTCGCCTCTAATTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000057914-Cacnb2:NM_023116:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.031 A=NA C2=0.524
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=FE(17.0=100)
A:
NA
C2:
PF0062516=Guanylate_kin=PD(14.3=41.3),PF068127=ImpA-rel_N=WD(100=44.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAAAGGTTGATAAAATCTCGAGGGA
R:
GTGAATTAGAGGCGAGGGTGG
Band lengths:
278-1645
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: