MmuINT0107875 @ mm10
Intron Retention
Gene
ENSMUSG00000039103 | Nexn
Description
nexilin [Source:MGI Symbol;Acc:MGI:1916060]
Coordinates
chr3:152237665-152238432:-
Coord C1 exon
chr3:152238247-152238432
Coord A exon
chr3:152238023-152238246
Coord C2 exon
chr3:152237665-152238022
Length
224 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGT
5' ss Score
9.79
3' ss Seq
ATATACTTATTTTAATACAGAAA
3' ss Score
4.63
Exon sequences
Seq C1 exon
GACGATGATGTTGATGTAAGGCCTGCAAAGAAGAGTGAGTCTCCTTTTACTCATAAGGTGAACATGAAAGCCAGGTTTGAACAAATGGCAAAGGCAAGAGAAGAGGAAGAACAAAGAAGAATTGAAGAACAAAAGTTACTACGAATGCAGTTTGAACAGAAAGAAATCGATGCGGCATTACAGAAG
Seq A exon
GTATGTATAAATGGAGATGGTTCTCTGAACATGTCTGCAAGCAATTAAGAAACGTCATAGGCTAGGTAGCTTGCAAGCCACTGGAACGGTTTAGGCAGTAAACTTGCTCTTTTCTGTGTCAATGAAAACCAGGGCATCATGCATGCTACCCAACACTCCTCTTTTTTACATTCAAAATTCTATTACTAAAATGTCAACTTGATAATATACTTATTTTAATACAG
Seq C2 exon
AAAAGAGAAGATGAGGAGGAAGAAGAAGGTAGCATTGTTAATGGCTCCACTACTGAAGATGAAGAGCAAACCAGATCAGGAGCTCCATGGTTCAAAAAGCCTTTAAGAAATACCTCAGTTGTAGACAGTGAGCCAGTCAGATTTACTGTTAAAGTAACAGGAGAACCCAAGCCGGAAATTACATGGTGGTTTGAAGGAGAAATACTGCAGGATGGAGAAGACTATCAGTACATCGAAAGAGGTGAAACTTACTGCCTGTATTTACCGGAAACCTTCCCAGAAGATGGAGGAGAGTACATGTGTAAGGCAGTCAACAATAAAGGCTCAGCAGCGAGCACCTGCATTCTTACCATTGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039103:ENSMUST00000046045:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.807 A=NA C2=0.380
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0767911=I-set=WD(100=75.0)
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:
GCCAGGTTTGAACAAATGGCA
R:
AATTTCCGGCTTGGGTTCTCC
Band lengths:
297-521
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