MmuINT0107215 @ mm10
Intron Retention
Gene
ENSMUSG00000026950 | Neb
Description
nebulin [Source:MGI Symbol;Acc:MGI:97292]
Coordinates
chr2:52157291-52157924:-
Coord C1 exon
chr2:52157832-52157924
Coord A exon
chr2:52157384-52157831
Coord C2 exon
chr2:52157291-52157383
Length
448 bp
Sequences
Splice sites
5' ss Seq
TCGGTATTT
5' ss Score
4.52
3' ss Seq
TACTTTCTTGTATCTCACAGGTT
3' ss Score
9.78
Exon sequences
Seq C1 exon
GTTATGTACAAAGAAAACCCGGGAACAGGCATCCCGACCACTGTCACTCCAGAGATTGAGAGAGTCAAACGCAACCAAGAGAACTTTAGCTCG
Seq A exon
GTATTTACAGATACATGAAATAAGACATTCTGTCCCATAAAAAAACTACCAGAATAACCTCCCGTTCTACTTTTCAAAGTAACAGCTTAACGACTCAGTGTGTGTTTTGTGTATCATCCTCTGATGAAAACCACCTGACCTGATGCAGAATTGGCCACTCTTCGCTCTTTAACAGTTTCAGCAACTGACTGGTGTGAGCTAGATCTGAAACACTGTTAGCAGCATTAACAAGCTTCCTTGGGGTGCTTGAACCCTGGAACCCAGTGCTTCCTGCTGTACCTAAGACATAGCAGTGTAAAGTGCATCTGTAAAGTTGTCACTTTCAGAACATTACCCTGACTAAATACTGCTCTCTAAAATCGCCCTCCTCACCCACACCCCAACCTACCCCCTTCCTCCGTCTCTGCTTGTTTTGAATGTTTTCTGGGTACTTTCTTGTATCTCACAG
Seq C2 exon
GTTTTGTACAAAGAAAGTTTGGGAAAAGGAACCCCTACAGCTATCACTCCAGAGATGGAGAGAGTCAAACGCAATCAAGAGAACTTTAGCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026950:ENSMUST00000075301:141
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.849 A=NA C2=0.860
Domain overlap (PFAM):
C1:
PF0088013=Nebulin=PD(25.0=19.4),PF0088013=Nebulin=PU(57.1=51.6)
A:
NA
C2:
PF0088013=Nebulin=PD(35.7=32.3),PF0088013=Nebulin=PU(59.3=51.6)
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:
TGTACAAAGAAAACCCGGGAACA
R:
CGAGCTAAAGTTCTCTTGATTGCG
Band lengths:
182-630
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