MmuINT0107206 @ mm10
Intron Retention
Gene
ENSMUSG00000026950 | Neb
Description
nebulin [Source:MGI Symbol;Acc:MGI:97292]
Coordinates
chr2:52164592-52165277:-
Coord C1 exon
chr2:52165167-52165277
Coord A exon
chr2:52164703-52165166
Coord C2 exon
chr2:52164592-52164702
Length
464 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGTA
5' ss Score
4.45
3' ss Seq
GTTTTATTTTTGTAATCTAGAAA
3' ss Score
6.71
Exon sequences
Seq C1 exon
AAAGAATATAGGAAAGATTATGAAGAGTCCATTAAAGGCAGAAACCTGACGGGCCTGGAGGTCACGCCAGCATTGTTACATGTCAGACATGCAACCAAAATAGCAAGCGAG
Seq A exon
GTAGTAACCACGTGGGCTTCCCCTTCCCCCTTCACCCAATAATCACACTAATGATTCATCGTGTGTTCCTGCCTGGGTCCCACCTGACTCAGCCTTTCAGGTCGCGTTTCCATGTTTGGTACTACTGTCTAATCTATGACCCGTTTTAATTCTTCTAATTTTTAAAATGAAATATCTAATGAAAACATGCCTACCTTAGTTGTCTATAGAAAAATCTAATAAAACATGCCTACCTAGGCATTCTATTAATTTCCAGTCTTGGATTTAATTATTAACAGCAACTGTGAACCACACACCCTGCATCTTCTCATGTATTTACTTACTCAACCATGGACTGTTAAAAACTGGAATAATTGTCATACTTATTTATTCATTGATTCATTTCAGTTTAGTTCTGGCTTTTCACCTGTGAGAATGATCCAGGCTTTCTTGTCAGTTTTGTTGGTTTTATTTTTGTAATCTAG
Seq C2 exon
AAAGAGTATAGGAAAGACCTGGAAGAAAGCATCCGAGGCAGAGGTCTCACTGAGATGGAAGATACTCCTGACATGCTGAGAGCCAAGAATGCCACTCAGATCCTCAATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026950:ENSMUST00000075301:133
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.459 A=NA C2=0.879
Domain overlap (PFAM):
C1:
PF0088013=Nebulin=PD(37.9=29.7),PF0088013=Nebulin=PU(57.1=43.2)
A:
NA
C2:
PF0088013=Nebulin=PD(35.7=27.0),PF0088013=Nebulin=PU(55.2=43.2)
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:
ATTATGAAGAGTCCATTAAAGGCAGA
R:
CTCATTGAGGATCTGAGTGGCA
Band lengths:
206-670
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