MmuINT0107217 @ mm9
Intron Retention
Gene
ENSMUSG00000026950 | Neb
Description
nebulin [Source:MGI Symbol;Acc:MGI:97292]
Coordinates
chr2:52006884-52008668:-
Coord C1 exon
chr2:52008576-52008668
Coord A exon
chr2:52006977-52008575
Coord C2 exon
chr2:52006884-52006976
Length
1599 bp
Sequences
Splice sites
5' ss Seq
TCGGTACTC
5' ss Score
3.1
3' ss Seq
GATCCACTGGACTCATTTAGGTT
3' ss Score
4.67
Exon sequences
Seq C1 exon
GTGCTATACAAAGAGAACATGGGCAAGGGAACCCCTTTACCTGTCACTCCAGAGATGGAGAGAGTCAAACACAATCAAGAAAATATTAGCTCG
Seq A exon
GTACTCTGACAAAGAAAAAAAATGATTCCTTCATGATTTTAAAACTACTTCAATGACTTAAAAAATAATTCCTATTAATCCTATTTTAAAAGGCACCTTAAGTCTTGTCCATTTCTTGACCACATTTATCCTTTGTTCCTACCTAGCCTTAACTTCATAACAGAATTGCTCTATTGCCTTTAAAATTCTAATATCAAGGTAACAGACTTTCCTACAAAATATTCTTCCGCTCATCTCTCCTATAACTTACTGTTGTACCCAAGGTCTCTTTGTTTTGTGTGCTTGAGAAACTGGGGCGTTAGGGACCTTGATGAGTTAAACTGGAGGGATAATGAGGCTCTCTTGGATGCTGAACGCGTTGATGATTCTGACTGACCCCACCAGATTTGACTCTTTTGTAGTGCATATAATCAGTCAGCAAGGCTTGGCACAGACTGAAGCGTGCCCTTCCCTTACACTGAACTAGATCCCGGGTCGTACTGTGATAGACGTGGGCAAAGAGATCTTGGGAAAGTAGCTCCTGATCCTCGTCCATAGATAATGACGTCAGCTTGATATGGTGGTGTTTTCACAACTGAATAAGCTACTGAAAAAGGAAAGCGTCGAGACTTTTTGTCTTACTGATTTTAATTTTGGTTTTGTCGTTTCTACTATGAAACTCAGTGCTAACAATAACAATATTTCCTTCATGCTTGTGCTCTCTGGTATTAATCTGTCCGTGACTGGGGGGCAGAGTCTGTGGGGACTTTAGCTGTCAGTAGTGAAGATACTGCTCAGCGTCTATACTGCCTGACGGTTTCTGCTGTTCATCAGAATTACCTGAACACTGGTTAAAACAGGTTTCTGGGTCTGACCCATGTCCCCTGTTTTGCCAGTAGCCGCAGTATAGAGCAAGGACAGGCATTTCTAGTAAGTCACAGCTGATACTGACTCAGCTATTCAAGGACTTAGAGAACTGCTGGAAGACAATCCCTTAGTGACATTTCCCAATTCTCCCAGGTTACTCAGAGGGACACTGAGGAAGAAGACATTGAGGTTGAGGGTTTATTTATGACACAGGTCTATTGCTTTTACATGCTGGTAATGTAACTGCTGAAAACATTTCTCGCGGCTGGTAAGTGTGACATACTTAGTGACTAAAGCAAGCAGGACAGAAAGATAGAAGAGTAAGTGAAACACTTGCCTGGAAAGTCTACAGTTTTATTCCCTATGAGGTCCTGTGCTGCAAAGGCACACATTAAAGAGTTGTTGTATTGGGGCAATTTCAAAATACAGACCCACATGGTAACTCCCAATTAGGTGATGTGTCAGGAGACTGATAGTCACATACTAGTAATAAAATGATGGTAGGGCTTCCTCCTTTCTGGAGCATCATGGTTCTCACAGGGCAAGGTTGTACTATAGAATGCGTGTCTTGCTCTAACTACAGTCAACTTTTCCTCTGAAAACACTGACCGCTGTCTAACCTTAGCGCCTAAATGGCTTGGTGCCCAGAGCCGCATCAAAAGTTAATATACTATTCCATTTCTTCTTTTGGTAATTGTAACTCTTTTTTGTTGTGTCTCCTTTTGGATTTCTGGATCCACTGGACTCATTTAG
Seq C2 exon
GTTTTGTACAAAGAAAATGTGGGGAAAGCCACCCCAACCCCTGTCACTCCAGAGATGCAGAGAGTCAAACGCAATCAAGAAAACATTAGCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026950-Neb:NM_010889:148
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.952
Domain overlap (PFAM):
C1:
PF0088013=Nebulin=PD(35.7=32.3),PF0088013=Nebulin=PU(57.1=51.6)
A:
NA
C2:
PF0088013=Nebulin=PD(35.7=32.3),PF0088013=Nebulin=PU(57.1=51.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
TGCTATACAAAGAGAACATGGGCA
R:
CGAGCTAATGTTTTCTTGATTGCGT
Band lengths:
185-1784
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: