MmuINT0107296 @ mm9
Intron Retention
Gene
ENSMUSG00000026950 | Neb
Description
nebulin [Source:MGI Symbol;Acc:MGI:97292]
Coordinates
chr2:52084018-52084372:-
Coord C1 exon
chr2:52084268-52084372
Coord A exon
chr2:52084126-52084267
Coord C2 exon
chr2:52084018-52084125
Length
142 bp
Sequences
Splice sites
5' ss Seq
CATGTAAGA
5' ss Score
5.58
3' ss Seq
GTATTTCCCTTTCTACCTAGAAA
3' ss Score
7.75
Exon sequences
Seq C1 exon
CATTTGTATACAGAAGCTTGGGATGCTGACAAAGCCTCCATCCATGTCATGCCAGACACCCCTGAAATCCTGCTGGCCAAGAGCAATTCTGCCAATATCAGCCAT
Seq A exon
GTAAGAGATGTTCTTGGGTGTTGCTTAAGCCTTCGTAGAAACCTTTAAAATAATTTTCCACCTTAATAGTGTCTTGTCTGGGAGTGGCCTGCTGGGTTTCTAAAACAGTTCCGTGTTCTGTTGTATTTCCCTTTCTACCTAG
Seq C2 exon
AAACTATATACCAAGGGATGGGATGAATCAAAGATGAAGGACTATGATCTGAGAGAGGATGCTATTTCCATCAAAAGTGCCAAGGCCTCCAGGGACATTGCCAGTGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026950-Neb:NM_010889:79
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:
PF0088013=Nebulin=PD(37.9=31.4),PF0088013=Nebulin=PU(55.2=45.7)
A:
NA
C2:
PF0088013=Nebulin=PD(37.9=30.6),PF0088013=Nebulin=PU(55.2=44.4)
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:
TTGTATACAGAAGCTTGGGATGCT
R:
ATCACTGGCAATGTCCCTGGA
Band lengths:
210-352
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: