MmuINT0023116 @ mm10
Intron Retention
Gene
ENSMUSG00000047617 | BC029214
Description
cDNA sequence BC029214 [Source:MGI Symbol;Acc:MGI:2442831]
Coordinates
chr2:25460167-25460494:-
Coord C1 exon
chr2:25460445-25460494
Coord A exon
chr2:25460358-25460444
Coord C2 exon
chr2:25460167-25460357
Length
87 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
ACACACATCTCCCTCCTTAGGGC
3' ss Score
9.27
Exon sequences
Seq C1 exon
AAAGCCCGATTTGGCCTAAGTGGGGCTGAAGATATCCATTCCCGGTTCAG
Seq A exon
GTGAGTTCCAGTTAGGGAGGCCATGTGAATGAGAAGCTTGGGGTAGTGCTAACACATCCTGGCCATAACACACATCTCCCTCCTTAG
Seq C2 exon
GGCAGCCTGCCAACAGCAGGCAGTAACTGTAAGCCTGCAAGAAGACAGAGCATTGATAACCCTTTCAGGGGATACCCCTGCCCTGGCCTTTGACCTCTCCAAGGTGCCCAGCCCGGAGGCAGCCCCCAGGCTGCAGGCTTTGACTCTCAGCCTGGCAGAGCATGTATGCAACCTAGAGAGGCGGCTGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047617:ENSMUST00000114261:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.038
Domain overlap (PFAM):
C1:
PF153841=DUF4610=FE(10.7=100)
A:
NA
C2:
PF153841=DUF4610=FE(32.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
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:
GGCTGAAGATATCCATTCCCGG
R:
CAGGCTGAGAGTCAAAGCCTG
Band lengths:
181-268
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