MmuINT0107223 @ mm9
Intron Retention
Gene
ENSMUSG00000026950 | Neb
Description
nebulin [Source:MGI Symbol;Acc:MGI:97292]
Coordinates
chr2:52004281-52004797:-
Coord C1 exon
chr2:52004614-52004797
Coord A exon
chr2:52004374-52004613
Coord C2 exon
chr2:52004281-52004373
Length
240 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACT
5' ss Score
8.63
3' ss Seq
AATACTCGCTTTCTTTTCAGGTC
3' ss Score
11.28
Exon sequences
Seq C1 exon
GTGAAATATCATGAAGACTTTGAGAAACACAAAGGCTGCTTTACACCAGTGGTGACAGACCCTATCACTGAACGAGTAAAGAAAAACACACAGGACTTCAGTGACATTAACTACCGAGGTATTCAGAGAAAAGTGGTGGAAATGGAACAAAAGCGGAATGACCAGGATCAAGATACCATTACAG
Seq A exon
GTAACTGGAAACAAATTGATACCAAGTGGAAGGCAAAGGACCCCAACCTGAGCAAGCCCCATTGCCAGTTTGCAAAGCTGAGACCTGAGAAGTGCCTTCTGCCACCTTTGCTCTAAGAAGACCAGAACCTAAACTAAGTAGGAGAAGCCCAGCCTCCTGTGATTGCTGATGCTCTTGCTTGCTTCTCTAGATACAGGCAAATGCTACAACATTTGTTCTGAATACTCGCTTTCTTTTCAG
Seq C2 exon
GTCTGCGTGTCTGGCGTACTAACCCTGGTTCAGTTTTTGACTATGATCCGGCAGAAGACAACATTCAATCCCGAAGTCTGCACATGATTAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026950-Neb:NM_010889:153
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.629 A=NA C2=0.623
Domain overlap (PFAM):
C1:
PF0088013=Nebulin=PD(37.9=17.7)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATATCATGAAGACTTTGAGAAACACA
R:
AATCATGTGCAGACTTCGGGA
Band lengths:
268-508
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: