MmuINT0107884 @ mm10
Intron Retention
Gene
ENSMUSG00000039103 | Nexn
Description
nexilin [Source:MGI Symbol;Acc:MGI:1916060]
Coordinates
chr3:152242659-152244023:-
Coord C1 exon
chr3:152243826-152244023
Coord A exon
chr3:152242881-152243825
Coord C2 exon
chr3:152242659-152242880
Length
945 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
GAAATCTTACTCTTTTGAAGGAA
3' ss Score
6.47
Exon sequences
Seq C1 exon
GTATTAGATGATGATTCCCCAGAGATTTATAAAACAGTGTCTCAAGAATCTCTTACTCCTGGAAAACTAGAAATTAATTTTGAACAATTATTAAGACAAAAAATGGAAGAAGAAAGACGACGAACAGAGGAAGAACGCAGGCATAAACTAGAAATGGAGAAACAGGAATTTGAACAACTGAGACAAGAAATGGGAAAG
Seq A exon
GTAAGAATGCTCACTTAGTGCTCTGAGTATTTTCCCGACATTGCTTTACCTTGATGTATTGTTAATCACACGGATATTTGACATACATTTATGACACATATATAGGCTACCATGTCTGACCTGGTAGAGTGTAGCAAGGAATGTGGCCCAACATAATACTGAAAACACTTTTAAGACAACGTTAAGATCCTTTTAGTGATTTATTTGCTATAACTAAATTGTGGTTCTCCTGTGTGAGTGAGCCTTGTAGGGAACAGTGTCTTAACACAATGTAACAGGAGAGTAGAGCTGTTCTTCCAAAGAACTGAGATGCAATCCCAGCACTCACGGCTCACTACTATCCATGAGCTCCGTTCTAGGGGATCTGCTGCCCGATTCTAACCTGCTCAGGGCATGCATGTGGCATACACACATCATGCAGCCAAAGCATTTATATAGAAAATAAAAAAGTTAAGTAACCAATATTGTATCTAATTGTGGGTCCAAAGCACACAGTATTGGTCCTAGCAATTAAATATACCAAAAAGAAGCTGTTCAAGGCTTTCTTTATGTGAAAGATTATAAGTTATAATAAGGATTTTTTTTTTTCAATTTAAGACTTATTTCCTGTGTTCTGCCTGTGTATATGTCTGGCAAGCAGTGTTAGTGGAGGCCAAAGGAGAATGTCAGATCCCCTGAAACTGGAGTTAAATTCTGTGGGCCTTGATGTGAATGCTGGGCACTGAACTCAAATTCTTAGAAAGATTAGCCAGTGTTCTTAACCACTAAGCCATCTTTCCAGCCCCAGAAATAAAACTCTTAAAATAGTACATATACACATGATTCCAGTTGTCCTATGAGTTCCAGGCATCTGCTTCGTTGTACTTCCTCACACACAGAAATTAAGAGGGAACATTTATTGTAATTTGCTGATACTCAACATTTGGAAATCTTACTCTTTTGAAG
Seq C2 exon
GAAGAAGAAGAAAATGAAAGCTTTGGGTTGAGTAGAGAATATGAAGAATTAATTAAATTAAAAAGGAGTGGCTCAATTCAAGCTAAAAATCTAAAAAGCAAGTTTGAAAAAATTGGACAATTGTCTGAAAAAGAAGTACAGAAAAAGATAGAAGAAGAGCGAGCAAAAAGGCGAGCAATTGACCTTGAAATCAAAGAGCGAGAAGCAGAAAACTTCCATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039103:ENSMUST00000046045:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.846 A=NA C2=0.447
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
TGTCTCAAGAATCTCTTACTCCTGGA
R:
TCAAGGTCAATTGCTCGCCTT
Band lengths:
349-1294
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