MmuINT0032380 @ mm9
Intron Retention
Gene
ENSMUSG00000016493 | Cd46
Description
CD46 antigen, complement regulatory protein [Source:MGI Symbol;Acc:MGI:1203290]
Coordinates
chr1:196911527-196912474:-
Coord C1 exon
chr1:196912286-196912474
Coord A exon
chr1:196911630-196912285
Coord C2 exon
chr1:196911527-196911629
Length
656 bp
Sequences
Splice sites
5' ss Seq
TTAGTGAGT
5' ss Score
5.79
3' ss Seq
TTATTGTTATTTTCTTCTAGAAG
3' ss Score
8.6
Exon sequences
Seq C1 exon
ATGCCTGTGAACTACCACGGCCATTTGAAGCTATGGAACTCAAGGGTACACCTAAACTCTTTTATGCCGTTGGAGAGAAAATAGAATATAAGTGTAAAAAAGGATACCTGTATCTGTCTCCATACCTGATGATTGCTACCTGTGAGCCAAATCATACATGGGTCCCTATTTCAGATGCTGGTTGTATTA
Seq A exon
GTGAGTAAATTCAACTTTTTGTTTGTTTGATTGATTGCTTGATTGATTTTAGACATTTTCGAATGGGGTCATATACCTCTATTGCAGAGATGAGTTTATGTGAAACAAAGCTTTGATGTATTTTTTTCCCTCAGGTTTTGAGAAATTTATAGGTAATCTTCCCCACCCCTCCTTGGCATTTAGTTGATTTCCTAATTGCTACTCTTGTGCTTGCCCTTTGTATTAGTTACTTTTCTGACACTGAGAAACAACATGACCAGGTTTAATTGGGCTTATGGTCTCAGGTGTTAGATACATAATGGTTGTTAAGACACAGTGGCAGAAAGAGCTGGGAACTCACATCTCAGAATGACAAGTAGGATCAGTGAGAATACTGGTAATAGAACAAGTCTTTTGAAACTTCAAAGCACACCTCATTCTAGTGACATTCTTCCTCCAGCAAGGTTACACTTCCTAATCTTCCCCACACAGCCAACAACTGGGAACCCACTATTCAAATGCCTTTATGGAGGCTATCTTATTCAAACCACCACACTCTTACAATGTAATTATTAAATAATCCACAATCTCAAAAGAACTATATATGATTTTGACTTTGATTCAAGTGCAACTGGCACTGGAGCTATATTAAAGTTTTTATTGTTATTTTCTTCTAG
Seq C2 exon
AAGTTCAATGTACTATGTTACAAGACCCTTCATTTGGCAAAGTATACTACATAGATGGCAGCTTTTCATGGGGTGCTCGAGCTAAATTTACTTGTATGGAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000016493-Cd46:NM_010778:2
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:
PF0008415=Sushi=WD(100=93.8)
A:
NA
C2:
PF0008415=Sushi=PU(51.7=88.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGTGAACTACCACGGCCAT
R:
TCCATACAAGTAAATTTAGCTCGAGC
Band lengths:
286-942
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: