MmuINT0107220 @ mm9
Intron Retention
Gene
ENSMUSG00000026950 | Neb
Description
nebulin [Source:MGI Symbol;Acc:MGI:97292]
Coordinates
chr2:52006057-52006579:-
Coord C1 exon
chr2:52006487-52006579
Coord A exon
chr2:52006150-52006486
Coord C2 exon
chr2:52006057-52006149
Length
337 bp
Sequences
Splice sites
5' ss Seq
TCGGTATTT
5' ss Score
4.52
3' ss Seq
GATACTCTTGGCTCCCCTAGGTA
3' ss Score
8.42
Exon sequences
Seq C1 exon
GTGCTATACAAAGAGAACATGGGGAAAGCAACCCCCACACCCTTCACTCCTGAGATGGAAAGAGTCAAACGCAATCAAGAAAACTTTAGCTCG
Seq A exon
GTATTTGAGAGTAAAAATCAACCATTACAATTCTAACAAGCCTGACCATCACGGCGATACCACTAATTCTTCTCACAGGGTTTCCAAGGCCTCTTGATACCTTTTCAGATTCTTCCTTGGCCACTTAAAAACATCCACCCACCTTTGCTAGTTCACACTGAGTTCAAGTCTTATCTCTCGCTTTTTACTGTAACAATTTAATGGCTTTCTCCTCCTGAAGTGTTTCTTATACTGTGTGACATAATTGGGCCATAACAATAGCTCAACGGTGACTTCTCAGAACTGTGTTTTTTTTTTCCTTTGCTCTCTGATGTTGGGATACTCTTGGCTCCCCTAG
Seq C2 exon
GTATTGTACAAAGAGAACATGAGAAAAGCAACACCAACGCCTGTCACTCCAGACATGGAGAGAGCCAAACGCAACCAAGAAAACATTAGCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026950-Neb:NM_010889:150
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.968 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0088013=Nebulin=PD(35.7=32.3),PF0088013=Nebulin=PU(55.2=51.6)
A:
NA
C2:
PF0088013=Nebulin=PD(37.9=35.5),PF0088013=Nebulin=PU(55.2=51.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGCTATACAAAGAGAACATGGGGA
R:
AGCTAATGTTTTCTTGGTTGCGT
Band lengths:
184-521
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: