MmuINT0107884 @ mm9
Intron Retention
Gene
ENSMUSG00000039103 | Nexn
Description
nexilin [Source:MGI Symbol;Acc:MGI:1916060]
Coordinates
chr3:151905623-151906987:-
Coord C1 exon
chr3:151906790-151906987
Coord A exon
chr3:151905845-151906789
Coord C2 exon
chr3:151905623-151905844
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-Nexn:NM_199465:9
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.864 A=NA C2=0.446
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: