MmuINT0027917 @ mm10
Intron Retention
Gene
ENSMUSG00000003352 | Cacnb3
Description
calcium channel, voltage-dependent, beta 3 subunit [Source:MGI Symbol;Acc:MGI:103307]
Coordinates
chr15:98634764-98639610:+
Coord C1 exon
chr15:98634764-98635213
Coord A exon
chr15:98635214-98639487
Coord C2 exon
chr15:98639488-98639610
Length
4274 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGT
5' ss Score
10.49
3' ss Seq
GACTCTCCCGTCCGTCCCAGGGT
3' ss Score
8.21
Exon sequences
Seq C1 exon
TTCTTCCCCGCCGCCCCGGCCCCGGAGGTGCCGGGGACCCACCTTCCCGACTCGCGTGCGCCCGGTTCCGCGGCCCCGGCGGGTCCCCCCTGGCTGCCGCGCCCCCGCCGCCCGCGTCTTCCCGGGAGGGGGTCAGGTGGGCGGGCACTATTGTTGTGGGAGCCGGCGGCAGATTCCTCAGCCGCGCTGGCGCGCTCGGGGTGGGACCGGCTGGGCTGGGGGGTGGGGAGGGGAGCGGTGATCTGAGCTGCGAGCAGCTGGTCTTCGCGGCTCGCTCCTTCCTTCGCGCTCGCGCTCTCCGCCGCCGCCGCCCGCAGGGCTGCGCGGCTCGGTGGCATCTCGGGCGCGGCCCGCCGTCCTCGCCCCCGGCGCCGCTCGCTCCCCCCACCCACCCCGGACTCCCCCATGTATGACGACTCCTACGTGCCCGGGTTTGAGGACTCGGAGGCG
Seq A exon
GTGAGTGCCCGCGGGGGAGGGTGGGGGGTGGGGGTGGGGGAGTTGGGATGACACCTCTCTCTCTTCAACCCTTCCCCCAGTTCTGCACTTTGAAAAACGCCTTGGCAGCGAGCGGGGCAGCGCGCGTAAGCCGGCGGGGGGCTCTCTAGGAAAGTGGGAAGATGGTCTCTCATAGCCAGGTATCCCAGGTACTCCGGTGTGTGCACAGGGACGCTGTAGGGGGAAGGCTCGAGCAGGTGGCCCCAAAGCTCAGGACATAGGAGGCTGAGGAGGGGAGGACAGAAGGCCCCGACACCGAGGTTTTTAGAGCGAACATGGAACATTTGGAGTTCCGTATCCTGGGTTCATGGGGTCTGAACACAACAGGGAAAGCTGAGCTCCGGGGGAGACACTCCGGACTTGTGCCTCAAGTAAATGACAAATTAGGGAGCTGGAAGAACATTAGCGACTCGCGTACCAGCCTCTGCAGACAGGAATTCTAGAACTTGGTCTCTTTTTCCTCTCTGCCCACCCCCCCTGCGCATGGCCTTGACTGCTCTCACTCACCACTGCCTCTAGCTCAGCTTCTTGGAAAGGCCACCAACCACAGGGGTGGGCCATCAGACTGTGTTCAGTCTAGCCCCCTGCAGAGGAGGGCCTGGAGGTGAGGCCAGGGGAGCTCAGGGGCATGGGGATGGGAAGGAAGCTCTTTGCTCCGAGAACCAGGCAACCAATAAATATTTAATTCTTCTCTTTGCTTTTATCTCCTGACCCACTGAGACAAATCAGCTCATTAGACAGTGATTCCCGGAGCTCAGAGAGCAGAAAGACTGCCTGGAAAGATGGGACAAGAGTTGGGGGGGGGGGTCAGTGTCAGAGCCTCATGGAGTCACCAGTCTCCCCTTAGACATCCCACTCGATATGGGAAAGGACCACTAACAGGGCTTGAAAGGGTCCCCTGACAGGATTAAATCGAGCCTTTTATCTCCGGCCCAGGAAAGAGGAGTGGTGAGCCTCAGAGCAGGCATGTGTCAGTCAGTTGATTCTGGGACCAGGCTCCTTCAGGACCCAATTTTCCATGGGGCTCTGGGGCTAATTACGTTGCAAGGGAGAGCAGAGAGGTGGTTCTGAAGGCTCTGGTGGGCACCTCTTTCTGACAGTTGAAGGGACAGTTGGCATAGCCCTGGGAGTCAGAATAAGCTGGAGGAGAGACCTCTCTGCGGGGCTGCAGGGCCCGAGGAGCTACCTTCTCATCCCTGGTGAGAAGCCGGGGCTGATGCAGGAGACTGATACCTGGATGTTATTTGAGGGCGGCCTGCTGACCCATTGCTCCCTCCTGACCTTCCCCGGTTCTTAGATCTCTTCCCCCCCAACTTCCCTTCCTCCCGCCAGCTCCTTGCTCTCCCCGAGGCCCCCTCTGAAGCAGTAGGAGGGAGATCAGGCTCTAAATAAATCCACTGGGCTCATCTCCCTCCTCTTCTTCCCCTGTGCCAGGCAAGAGAGGAGCTGCAGCCTGCCCACACACTCACCAGGCAAGGGGGGCACCACTAGGGCACTGTGCCAACTCCAGCAGCTCCAGAGTACTGAGACGCTCTGGCTTTGGGGGCATAATGGGTGGGGAAGTAAGAGCCTGCCATTCTGCAGGGTAGAATGCTACCTACTTTCTAACTGGTACCAGACCAGCGTATGCAACCCCCCAGGACATGGGAATTATGGAAAGTGGCTTCCATTCAGATCACAACCCATTAAAGAATTTAAGGAGAGACCCTGTCAATCTCTAGGGTTAAGAGCTCACCTAGCCTAGATACCCCAAAGGCATTAAGGACTAAATTGGACTGAGAGCTTGGATCTGGGGAGGTGGAAGCTACACTTCTCCCAATACCTGCTGGGTACTGAGGAAGTATCTGATCGTAGGTGGTCATCCTCCAAGGCCCTTTTCACCTGCTGGTCTCTATCTATCTATCTCTATCTTCTGCCAGCCACACCTCACAGCTAGCGTTTACATTCTGGGAGTGAGGTCCCTCACCCCATGTCAAGGTCTTGTTCTCCCATGGTTGGAGAGAGGGGGGCAGCAGACTGGCCTGTACTTCTGCAAAACAAAAGGCCTCCCCAAACCGCTACCCAGTTCTGGGGCTGCCTCAAGACATTTGGTTTACAATAGACACAGTCTTTAGCTCAGATTCCAGGGCTGCCAAACACCTAGCTGACCAGCCCTCTTGCACACCGGAAGGGCTGGGCTGTAGGCCTGGTTGACAGCAGGGGTGTGAGTTTGCCTTTTCCAAAGAGTCTGGCCTCTGCTGCTTGTAGGTAGGTAGTCATAGCCAGTGGCTTTAAGAGACTGTTCTTCAACCTCAACATTCAGAAACCTCTTTCCTTACACTCATTGCTTTTACCTAGCCTCTTAGCTTTTCTGTACCACTGACATCTCAGAATACAGGGAAGAATTCTTCCAGGCTCCTGCACACCAGAAGGAGAAACTGAGTCAAAAGAGATGTCTTTTTCCCTAATCCAGTTATCTTAACTTTCAGCTGCTTGTCTCAAAGTTGAACTTCCCTTATCTGTCTGGCATCTTCCTCATGGCCCTGAAGGTGACCTCTGTAACCCTCCAGATGTATGCTCCTACTCTGGGCAGGACTCAATGACTGTCCCTTCACATTACCAAAGGCATCCCCGAGGTCCTGTATCTCAGCTGGGTTGCCTGGCACCAGCACAGTCTCCCTCCAGGCCCTGATCTCCCTTGGGCCCAGGGAAAGGAGAGAGATACAGAGCAAATGGTTGGTGTGAGGCCTCGCCTGTACCCAGGGAGACAGCCATGTGTTGCTCTCCTCCGTGTCTTCTTGCTGCTTCCACATGCCCAGTTCCCTGTCCCCACAGGTGTGGGAAGGAAAGAAAGTGGGTGGGGGGAGAAAAGGGAGGTAACTTCCAGAAGTCTGTAGTTTGGCCCAGTCTTCACACGCAAGGCGAATTTAACAGCTTTCTTTCTTTTTTTTTTTTGTTTTTTTGTTTTTTTTTTGTTTTTTGTTTTTTGTTTTTTGTTTTGTTTTTTCGAGACAGGGTTTCTCTGTATAGCCCTGGCTGTCCTGGAGCTCACTTTGTAGACCAGGCTGGCCTCAAACTCAGAAATCCGCCTGTCTCTGCCTCCCAAGTGCTGGGATTAAAGGCGAGAGCCACCACGCCTGGCTTAACAGCTTTCAAAACTTTGTTGGAAGCCTGCTGTGAGGGTACACCAGCACCTGAGAGATAGAGGCAGGCAACTAACTAGCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTGTGTGTGTGTGTATGTGTGTGTGTGTGTGTGTGTGTGTGTTGGTTTGGTTTTTAAGATTGGGTTTCTCTGTGTAGCCCTGGCTGTCCTGAAAATAACTCTTTAGTCCAGGTAACACCACTGTCTAACTCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATCAGAGGACAACTTTCAGAGATGAGTTCTCTTGTTGTTGTTGTTGTCCTTCTCCTTCTCCTTCTTCTTCTCCTTCTTCTTCTTTTTCTTCTTCTTCTAAGATTTATTTATTTTATGCATGTGAGTACAGAAGAGAGCATTGGAGCCCATTGTAGATGGTTGTGAGCCACCATGTGGTTGCGGGGAATTGAACTCAGGACCTCTGGAAGATCAGTCAGTGCTCTTAACTACTGAGCCATCTCTCCAGCCCGGGTTCTCTACTTCTGTTGGTTCCCTGGAGTGACCTCTGGTCATCCATCTTGTTTGAACAGCAAATACCTTTACACCACCCTGCTTTTGGGGAGCAGGGGAGTAGGTCTCATATAGCCCAGAAAGTCTTTAGCTCTCTAGCTACTAAACCTGACCTCCCAAGTGCTAGAATTATAGGTGTGTACCCCCACATCCAGCTCCAACCGGCATCTGTTAGTTAGCTGTACTCTTTCCAGTCATCTTAAAGGGATAATGTCCAGGTTGCTTCAGGCTCTTGTGGAGATAAGAGAACATGGTCTCCTGGATTTAACACCACCTGAGTATATCATCTTTAGTATTTTAGTATTTAATAGAGGGGAGAAAAGAGAGCGAAAAGTGAAGATTTTGTTCAGAGCTATGATATAAATAGGCGTGGGGAAGAAGACCCTGTACTTTGCACATACAGATTGGGGCAGCTTCCGTTTAGCCTTAGAGGCACCGGGAGGCACACAGAAGGCAGTTTTGGGGTCAAGTCATCCCCTAGAAGATGGAAAACTTGCATCAGGGCTAGGAGGACTATTACACAGACTCTCCCGTCCGTCCCAG
Seq C2 exon
GGTTCAGCCGACTCCTACACCAGCCGCCCCTCTCTGGACTCAGACGTCTCCCTGGAGGAGGACCGGGAGAGTGCCCGGCGAGAAGTGGAGAGTCAGGCTCAGCAGCAGCTGGAAAGAGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000003352:ENSMUST00000003442:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.396 A=NA C2=0.878
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF120523=VGCC_beta4Aa_N=PU(93.0=97.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types