MmuINT0107253 @ mm9
Intron Retention
Gene
ENSMUSG00000026950 | Neb
Description
nebulin [Source:MGI Symbol;Acc:MGI:97292]
Coordinates
chr2:52184238-52186370:-
Coord C1 exon
chr2:52186329-52186370
Coord A exon
chr2:52184439-52186328
Coord C2 exon
chr2:52184238-52184438
Length
1890 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
GCCACGTGTTTTATTTTCAGACA
3' ss Score
8.16
Exon sequences
Seq C1 exon
TACTACACAGAGGAGACAGTTTACGAAGAGGTGCCAGGAGAG
Seq A exon
GTAAGACTCAGCACACACTTGCATGAACCGATTCTCATTAGAGAAGAGCTTCTTTCTTCCCTCAGAGACAGAAAGATGGCGAAAGGGAGTCTCTTTAGGGTGCTCACTCTCCCGTGCTCAGAAGTTGGTACTGCAGAAGATGGCCTAGTCAGCCATCAGTGGAAAGAGAGGCCCCTTTGGTATTGCTAACTTTATATGCCCCAGTACAGGGGAATGCCAGGGCCAAGAAGTGGGAGTGGGTGGGTAGGGGAGTATGATTGGGGGCGGGGGAGGATATAGGGGACCTTCAGGATAGTATGTGAAATGTAAATGAAGAAAATATCTAATAAAAAAATTAAAAAAAAAAAGGTTCCTGCTGCCAAGCCTGATGACCTGGCCTCAATCTTGGAGAGCCAAATGATAGAAGGAATAAACCAATTCCCAAAAGTTGAAAAAAATAAAAGAAAATAAAAGTCCACACTCCACATTTGATAGGCTAATTCACATGTTTTTATACTCTGCTAAGCTCAGATGGCTAGAAAGGGTTCCCTACTGCATGTGGCATGGTTTACTTGTGCGTAGATACGTTTGAATGAAGGCCATGCCAGTGACTCCCTTTTCTCCTACACTGTCACACGAGGGATGCCTAGGACTTGTGATTGGCACAGACTCACAGTTTCACTACGTAAAGTTGTAACTTGCAGGGTAAAGTCTCTGCCACCAGGGATGGTGCTCCTGAGAATTCCAAGAAAAGGCTTTTATTTTCTTGTCAACAATCCCAAGTTGGAAATCCCCCTGCCTCGTACTTTACTTTCTGCATGGAGTTGTTTCTCCTTGAGCATGGCACATACTAATCAAAGCAGCAAACTGTGACACTTATGCCAAGAGCCCGTGACCTTGGAAGTTTGATTGGTTCCTCATGCCCAGGCATGCTTGAGTAATAATAGGCAGAGTTTAACCAATTAACAGTGGGACTTGTCAGATTTACAGTCGCCTTATCAGATTTCTCTTCCTCTTGCTGGTGCTAGAATTCTGCTTTGGACTGGAGATCTTTGTCTTGAAGGACATGATCTTCCACAGGTCTTTGAAGCCTCTGTGGCTCACCGTCTTCCCCTGCGTCCCTTACTCCTAACCTTGAACTACATTCCAACTTTGAATCTTAGCGTTTCCGTCACAGCCTGCTGTAAGAAACAATGGCTTCCCAGCTACTGCTTAGCTAAGACTGTTGAGAGGATACTTGTTCATTATGTCGCCACCATTGTTCTGGTCCCCGGCAGAAATGGCGGTCTAGTTCAGATTCATGAACTAAGTCGAGAGAATAATACAAATCCTGATGTGATTCATTTTGTAAGGTTTTGGGTTTTCCCCATGATATACAGAATGATGAAATGCCTATAGGAATTGCAACTGGTCTTTCTTAGCCACTTAAACGTTAAGATCAAGAATTTAAGCTTTATTTTTAATAGCCTTTCATTTCCAGGTCTCCTTTGCTTTTTCTTGATCTAAACCACTTGAAACGATTCTTATTATTTTGTTTTATGTTGACGATGCTGGAGGTGGAACATAGGATCTTGTACATGCTAAGCAAGGGCTCTACCATTGAGCGACAGCCTCAGCCCTCACTTAAGAAGACATGATTAAGACTCTCTAATTTTTTTTAAAATACTCCCTCAAGATATTTAATGAGATCTCTGAAAATACAGGTTACAGGTGATGTCTTAGTCAATATCTAGGCTATACATGGTACGTGTCTTCATATGGATGTATGAATATAATACGCATTTTCCTGCTTTGGCTTGTTTTGTATATGGAAAAGGAGCACCGGGGATGTCAGAATGACTGAAATTAGAACATTATACACCAAGGTCACTGTGTTAGTTTTTACTTCATAGCCACGTGTTTTATTTTCAG
Seq C2 exon
ACAATTACAGAAGTCTATGAGACCACAACGACAAGGACATCGGACTATGGCCAATCAGAAACTGCCACACCAGCGCTGGCACAGCCACAACCAGCAAAGCCGGTGGAGCGGAAGAAGGTCATCCGAAAGAAGGTGGACTCGTCCAAGTTCATGACCCCCTACATTCAACACAGTCAGAAAATGCAGGATCTTTTCAGCTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026950-Neb:NM_010889:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.643 A=NA C2=0.627
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0088013=Nebulin=PU(55.2=23.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACACAGAGGAGACAGTTTACGA
R:
TGAGCTGAAAAGATCCTGCAT
Band lengths:
239-2129
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: