MmuINT0027859 @ mm10
Intron Retention
Gene
ENSMUSG00000041460 | Cacna2d4
Description
calcium channel, voltage-dependent, alpha 2/delta subunit 4 [Source:MGI Symbol;Acc:MGI:2442632]
Coordinates
chr6:119281620-119282250:+
Coord C1 exon
chr6:119281620-119281706
Coord A exon
chr6:119281707-119282178
Coord C2 exon
chr6:119282179-119282250
Length
472 bp
Sequences
Splice sites
5' ss Seq
ATTGTGAGT
5' ss Score
7.35
3' ss Seq
CCTTTTCTTTCCTCTTAAAGCTG
3' ss Score
10.41
Exon sequences
Seq C1 exon
TACAGAGAAGGCAAGAAGCTGAGACCCAAACCCAACTACAACAGTGTGGACCTCTCAGAAGTGGAGTGGGAGGACCAAGCTGAAATT
Seq A exon
GTGAGTAAGAAGCTTTCCCTCATTTAGCCCTGTCACAGGTAGACGAGCACTGGGTGTCCTGGGAATGCCAAGGCCTCTGGGCGAGCAGCTGGGTTCTGTGCCTATGATCCTTTCAGCAACTGTGGATATTGAGCCATGACCCTGGTGTCACAGGTTACTGAGACAGGCTGGCCTATAAGCCCAGCATGGTTTCAGGGTTGTCAAGTTTAACGTCTAAGTCTCCATAGCGCATGCTAGAGGAGATTATGTCTCAGCAACACAACCCTATGTTCCAGAGCATCCATTCCTCAAAGCCCCGCCTCAGTGAGAGCCCACAACTGTGAGGCAGTGGCACCTGGACTCAGGTCCATCTTCCCTCCTAGAAGTCTGCTCAGAGGCAAAGGGAAGACCCAGTGTCCCAGGGATCCTAGGACATGGTCAGAGCCCAAATCCAGGTGAATAGGCACCAATCCCCTTTTCTTTCCTCTTAAAG
Seq C2 exon
CTGAGGACCGCCATGATCAATGGGGAAACCGGGTCTCACTCCATGGACGTGAAGGTGCCACTGGACAAAGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041460:ENSMUST00000037434:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.095 A=NA C2=0.042
Domain overlap (PFAM):
C1:
PF0274313=Cache_1=PD(6.4=20.7)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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