MmuINT0027820 @ mm9
Intron Retention
Gene
ENSMUSG00000021991 | Cacna2d3
Description
calcium channel, voltage-dependent, alpha2/delta subunit 3 [Source:MGI Symbol;Acc:MGI:1338890]
Coordinates
chr14:29916852-29918211:-
Coord C1 exon
chr14:29918140-29918211
Coord A exon
chr14:29916933-29918139
Coord C2 exon
chr14:29916852-29916932
Length
1207 bp
Sequences
Splice sites
5' ss Seq
ACTGTGAGT
5' ss Score
7.94
3' ss Seq
TTAATGTCTGTTTTCTACAGAGG
3' ss Score
8.94
Exon sequences
Seq C1 exon
CTTGCTGATGATCAGGGCCTCGTCTTGATGACCACGGTGGCCATGCCTGTGTTTAGTAAGCAGAACGAAACT
Seq A exon
GTGAGTATGGCAATGTGCCTTCTGCCTGGGGTTGGGGGTGGGTGGATATTTCTCAAATATCTTAGCATCTAAGCTCTAGGAAAAAAAATGGCTTCTTTGTTCCTCCTCGGGCTACTGTATGTGAGTTTATCCTTACAATTTTACCTTGCTGTGAGGAGTAAATGAGAAGATGGGCAGAGTTGTTATCATCTCTAGCTCCTCTCTAAGACACTCATATCTAGAAGAGGAAAATTCCCAGACAATTCTTGATTATGGTGGCTGTACTTCTCCTCAGTTATCTTTAATTTCTTGGAGCAGAGGTACTGCAAAGTGGCATGGTGTACCAACTAGCTGTGCATCTTTAGAGTCTGAAATCAAGATGTTTGCAGAGCCATGGTCCCTCTAAAAGAGCAAAGGAAGAATGCTCCCTTGTCATTGTTGGCTTCTGGAGCTCAGTACCCTTGGTCCATGGCAGCATCATTCCACATTAAATGGTTTGTATATGTCCTTCTCTCTATGTCCTTATCTCCTCTTTCTAAGGAGACCAATCACTGTATGTAGGTACCTCTATGAATCTAAGATGATTCTTTTGGAGGTCTTTAGCTACAATATCTGAAAAAAAAAAACATTTTCCAACTGCCATTGGATTCTGAAGTTGAGTGAGTGTGAATTTTCCAGAACACTATTCAACCTAACAACAAAACCATAAAGCAACAGACAGCAGTCATTTGTATGTTCTTCCTAATGGTCTTTCTGTCATTGGAAGTTTTAACAAAGCACAGTGGCCTCTTGCCCTAGGAATTGGGACCCTTGCTTTATAATGCTGCTAAAAATTAAATATAGAAAACAGAAAACAAGCGAACAAATAACAAAAAAAAAGGGTGCTTCTCTCTGGCCACTAGGCATCTTCTTTGTGGATACTAGATGGTGGTATATGTCAGGCAAATAAAACAGATGCCGCTGTAATCTGGTTCATAACCTGAGTCCTGAGGCCTGACATGTCTGGACTCCTACACACTATCTTTCCGTCCTCAGGTAGAAGGAGAGCATTAGAATATCTCTGCACCAGTGTGCTGCTGTTAGGTCAGAGACGTTCCCCTTCTTGGCTAGCTATAATTCAGATGGAGAGTGGAATGAAAAAGAGGCCCGTGGCAATCTGAGTTAGTGGTCTCCGGGAAGGCATCAGACAGTAACCTATTGTATTCTGCTTAATGTCTGTTTTCTACAG
Seq C2 exon
AGGTCAAAGGGCATTCTTCTGGGTGTGGTTGGCACAGATGTCCCAGTTAAAGAGCTTCTGAAGACCATCCCCAAATACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000021991-Cacna2d3:NM_009785:15
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=0.000
Domain overlap (PFAM):
C1:
PF0274313=Cache_1=FE(23.5=100)
A:
NA
C2:
PF0274313=Cache_1=FE(26.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: