MmuINT0107207 @ mm9
Intron Retention
Gene
ENSMUSG00000026950 | Neb
Description
nebulin [Source:MGI Symbol;Acc:MGI:97292]
Coordinates
chr2:52019457-52020222:-
Coord C1 exon
chr2:52020112-52020222
Coord A exon
chr2:52019571-52020111
Coord C2 exon
chr2:52019457-52019570
Length
541 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
AACAAACAATTCTTCTACAGAAA
3' ss Score
6.16
Exon sequences
Seq C1 exon
AAAGAGTATAGGAAAGACCTGGAAGAAAGCATCCGAGGCAGAGGTCTCACTGAGATGGAAGATACTCCTGACATGCTGAGAGCCAAGAATGCCACTCAGATCCTCAATGAG
Seq A exon
GTAAGACCATGGCCAGCCACTGCACGCACATAACTCATAATGCACCTTCATCCTACCCAAGGGAGACCAAGAGAAAGGGAAAATAAGTTTTGCATTCCAAACTTTATACCCAGAATAATTATTAACTGCTAAATAAAATTCATGTCAATTTCTGATGAGTAGATATGAAATCAGTATGTGTCTCTAGAGGTTGTCATAACCCGCTAGTATCTAATATTACTTGATTTAGTTGTGATGTGCTCACAATGGTCACTTAAAATATCACACCACACTGGAATGGCTTGCACCTAAATCTAATCCTAATATGTACCAAACCAGATTTAAACTTTACTTTCTGTATTAACGGACTTCCCTTGATTAATGTTGCTGTACCTAGAGCAGGATGAACAAGCATGCCATCCTGTCCATTGAGGTAGCTGGCAAGGGCAGCATCTGCAACCACTGAGGAGCGTGTTATGTGGATTTTTAATTCATTCTGTCTCCCTACTCAAAGAGAGTAGGGGACCTTTTTCTTTAAAACGAACAAACAATTCTTCTACAG
Seq C2 exon
AAAGAATATAAGCGAGACCTGGAGCTGGAAGTCAAAGGAAGAGGCCTGAATGCCATGGCCAACGAGACTCCAGATTTTATGCGGGCCAGGAATGCTACCGACATTGCCAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026950-Neb:NM_010889:139
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.876 A=NA C2=0.513
Domain overlap (PFAM):
C1:
PF0088013=Nebulin=PD(35.7=27.0),PF0088013=Nebulin=PU(55.2=43.2)
A:
NA
C2:
PF0088013=Nebulin=PD(37.9=28.9),PF0088013=Nebulin=PU(55.2=42.1)
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:
GGAAAGACCTGGAAGAAAGCA
R:
CTGGCTGGCAATGTCGGTAG
Band lengths:
215-756
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: