MmuINT0107244 @ mm9
Intron Retention
Gene
ENSMUSG00000026950 | Neb
Description
nebulin [Source:MGI Symbol;Acc:MGI:97292]
Coordinates
chr2:52148133-52148425:-
Coord C1 exon
chr2:52148321-52148425
Coord A exon
chr2:52148241-52148320
Coord C2 exon
chr2:52148133-52148240
Length
80 bp
Sequences
Splice sites
5' ss Seq
GAGGTGCAT
5' ss Score
2.99
3' ss Seq
AAGGGGGATTTCTCTTTCAGAAT
3' ss Score
6.74
Exon sequences
Seq C1 exon
ATTGCTTACAAAGCCAAGGGGGAGGAAATTCTGCATAAGTACAACCTGCCAGCAGACCTGCCGCAGTTCATTCAGGCTAAGGTGAACGCCTACAACATCAGCGAG
Seq A exon
GTGCATACATCACTGTCCTGCATGCCCAGCCTTTACCAAAGTGGCCTTGCAGTCCTATTCAAGGGGGATTTCTCTTTCAG
Seq C2 exon
AATATGTACAAGGCTGACTTGAAAGACTTAAGCAAGAAGGGCTATGACCTGAGAATTGATGCCATCCCCATCAAAGCCGCCAAAGCTGCCCGACAGGCTGCAAGTGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026950-Neb:NM_010889:31
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(59.3=45.7)
A:
NA
C2:
PF0088013=Nebulin=PD(33.3=25.0),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:
CCAAGGGGGAGGAAATTCTGC
R:
GCTTTGATGGGGATGGCATCA
Band lengths:
169-249
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: