MmuINT0027905 @ mm9
Intron Retention
Gene
ENSMUSG00000057914 | Cacnb2
Description
calcium channel, voltage-dependent, beta 2 subunit [Source:MGI Symbol;Acc:MGI:894644]
Coordinates
chr2:14902933-14904510:+
Coord C1 exon
chr2:14902933-14903084
Coord A exon
chr2:14903085-14904414
Coord C2 exon
chr2:14904415-14904510
Length
1330 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
CAAACCTGTACCTTTTCCAGGTT
3' ss Score
8.38
Exon sequences
Seq C1 exon
CGGAAGTTCAGAGTGAAATTGAAAGGATTTTTGAACTTGCAAGAACACTGCAATTGGTAGTCCTTGACGCGGATACAATTAATCACCCAGCTCAACTCAGTAAGACCTCTTTGGCCCCTATCATAGTGTACGTAAAGATTTCTTCTCCCAAG
Seq A exon
GTAAGCGGGTTACACTGTTTTCCTATATTCAGATATTATTGTCATGTGTTTTGTACTCTGTTCCGCAGTAGTTAAAGGCGATGCCTTCTTCATGGACATAGTTTTTGAAAAGCTCCACACTAGTCAAGAAGTTTTAGAAGAAGAATGAGCATGGTTAATGTGTGGCTCAGAGCAGTGGTCCTAAGTGTGGGTCCTGGACCACTGAAGGGACTTCAGAGGGTTTGTGACGGGAGCTGCAGCCACAGTACCATTAGGGTGTTTCTTTCCATCACTCTTGGCATCTCCACACACACAGTGGCAAAGCTGCTGGGAGTCCAAGCCTGGGTGCAGACTATAGCAGCAAATGCATCCGTGTGTTCTTACAGTTAGGACTGTGAGAAGCATTTGCTGCCAGCAATACCAATGCTAAGCAATGAAGCATGGAAACATGAGTGAGGATCACAGAGAACTCCATGAGTGCCTTTTTTGTTGTTGTTGTTGTTGTTTTTTTTTTTTTTTTTTTTTGTTTCCGGACAGGGTTTCTCTGTATAGCCCTGTCTGTCCTGGAACTCACTTTGTAGACCAGGCTGGCCTCGAACTCAGAAATCCGCCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGTGTGGGCCACCCCCGCCTGGCTATGAGTGACCTTATGAGTCATGTAGGGAATGGTCCAGCAGAATTTCAGGACAGAACAGTAATACTATGCGACATCAAGCTATTCCATATAGCTCCCGAGTCCTCATGGCCACAGGTCTGTATAGCTATAGATTTGGTGGACTTCAGTTTAGTAGCGAAGAATGAATCACCTGCTCTCTATGAGGAACCTGGCACAACCCCGTTATTTAACTGTGTATCTCTGTTATGGTCTCCCTACAAATATCAAGAAAACCTATATTATAGAATACTGGATACAGAAGCTGATATTTCAGATTTCTTAAAAAGTGATGTTTTTTAATTTAAAATGAATTAACAGTGCTACGATATTTGAAAAATATTAGAAATATTCCCTGAAAAGCAATGGCCCTTTGGGGTTCATGATATATATACATACATATATATATATATATATTTACTTAGGTGATGGTGCAGGAATTTTGAGAACTGTTAGGCAGGAAAATATCTCAGCATCAGCTTTACTCTTGTGTGTAAAGCTTGCAAGAGATGTATGGAAGCATGTTAGTTTTTTGGTTAATCTCTACGTTGTATTTTATTTCTCAAAGGTACATGTTGTTCATCCAGGGACAAGTATAAAGTAGTCCATAATATACTCTGTAGCTTATCCAAGTACAGATAATCCTGATACAAACCTGTACCTTTTCCAG
Seq C2 exon
GTTTTACAAAGGTTGATAAAATCTCGAGGGAAATCTCAAGCAAAACACCTCAATGTCCAGATGGTAGCAGCTGATAAACTGGCCCAATGTCCTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000057914-Cacnb2:NM_023116:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.031
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=FE(27.5=100)
A:
NA
C2:
PF0062516=Guanylate_kin=FE(17.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGAAGTTCAGAGTGAAATTGAAAGG
R:
GGAGGACATTGGGCCAGTTTA
Band lengths:
247-1577
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: