MmuINT0110625 @ mm9
Intron Retention
Gene
ENSMUSG00000049134 | Nrap
Description
nebulin-related anchoring protein [Source:MGI Symbol;Acc:MGI:1098765]
Coordinates
chr19:56454306-56454803:-
Coord C1 exon
chr19:56454696-56454803
Coord A exon
chr19:56454408-56454695
Coord C2 exon
chr19:56454306-56454407
Length
288 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGT
5' ss Score
9.11
3' ss Seq
TTTTTTGTTACTCCAAACAGGTG
3' ss Score
10.15
Exon sequences
Seq C1 exon
GTGAGGTACACAGAAGACGGTGGGCAGCAGAGAGGGAAAGGCAGTTTTCCTGCTATGATCACACCAGCTTATCAGATAGCCAAAAGGGCCACTGAGCTGGCGAGTGAT
Seq A exon
GTAAGTACCTGGGTTGTGTTGTCTTGTTAAGGAGGAAGCAAGAAGTTAATCTGGTTTGGGAGGTCCAACTTCCTGTCTGCTTTTATATATTACTAAGAGGCAAGAACTACCTTTTATTCATAGTTGTCAATCATTTTCCCCATGACAGTGCTACTTCTGTCTATGGCATTCTCCTTAGACCTAAGCAGAGACTGAAGATGCCACAAAGCATTGGTTTTTGTTTTTTGTTTTTTACCTTTTGTGGTTCTTATATTGGGACTCACTGAGTTTTTTTGTTACTCCAAACAG
Seq C2 exon
GTGAGGTACCATCAACAATATCATAGAGAAATGAAGGGAATGGCTAGTCCTGTCGGAGCCGAGGGTGGGATGACAAAGGACTCTGTAGACCGATGTGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000049134-Nrap:NM_198059:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.528 A=NA C2=0.882
Domain overlap (PFAM):
C1:
PF0088013=Nebulin=PD(37.9=30.6),PF0088013=Nebulin=PU(55.2=44.4)
A:
NA
C2:
PF0088013=Nebulin=PD(37.9=32.4)
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:
AGGTACACAGAAGACGGTGGG
R:
TGGCCACATCGGTCTACAGAG
Band lengths:
206-494
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: