MmuINT0107877 @ mm10
Intron Retention
Gene
ENSMUSG00000039103 | Nexn
Description
nexilin [Source:MGI Symbol;Acc:MGI:1916060]
Coordinates
chr3:152253051-152255365:-
Coord C1 exon
chr3:152255285-152255365
Coord A exon
chr3:152253130-152255284
Coord C2 exon
chr3:152253051-152253129
Length
2155 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGT
5' ss Score
11.08
3' ss Seq
TTACTTATTCAACCACCTAGATT
3' ss Score
4.47
Exon sequences
Seq C1 exon
GTACAAAAATATACAAGGCTTCAGCCCCAAACCACATAACCACATATAGCAAACATGAATGACGTTTCGCAAAAGGCAGAG
Seq A exon
GTAAGTAAATCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTAAGTGGGGTGGAGAGAGGCAGGAAGAGACTTGGAAAGGGAGGAAGAGCTGTAATGTAATAATACATGTTTAACTGGGGATTGTGGGAATGGTCACAGTTAGGTGTTTGTAACCTTATTACAAATATCAAGATGCACAAAGAGAGAAGATTCAGTTTGTACACGGTTGTGGGTCACTACTTGATCTGGGTTCTGAATCTCTGCAAGGCTGCAGTGGTCTTAGAAATGACTCCTTCAATGCTGTGTTAATGAGGCTTGAACCTTTGGAGGTGATAATTCAGTTTTTTTTTTTTAAGATTTATTTATTTATTATATGTAAGTACACTGTAGCTGTCTTCAGACACTCCAGAAGAGGGAGTCAGATCTCATTACGGGTGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCCAGACCTTCGGAAGAGCAGTCGGGTGCTCTTACCCGCTGAGCCATCTCACCAGCCCGATAATTCAGTTTTAGGAGGAGGACTCTTAGCATCTTCTAAAAACTGCAGTAGGAGTCCTCTCTTTTCCCCTTTCAGTTTCTTGGCTATGGTTACTGAGAATTGAGAGATCCCAGATGCTGACACTCAAAAGTGACAAACTAAGAGACTATGAGGGCCAGATCTGCCACATGATCTGTGCCACATGATCTGTGGTAGACCGTTAGGACAGAGAGTTTGGCATTCTGACACTCAATTTTATTTACAGAAATTTCTTTCACAAACTTCTAAATAAGATGAGAAGAATCTGCATTACTAGTTTTAGAACAGGGAAACCATTTCTCTAGTCTCCCATTAGACTTACTTTCTTCGGGGTTTTCCTTCTAGAGCCTAGTCTATGTAGTTGGTGTAGCCACCCTGCACACTTTAATGGGTTTTTTGGAAGTTGCACACAGGTGGTGCGACAGGAGACACGACTTATCTCTTGTGGGGTTGAACTGGCCTTCAGCTTTGCCTATGCTATGACAACGACAGTGCTGCCTGCAGTATGGACTTACCTCAAAAACCCAATCAAAATTCATACACTTTACTGACCTTTTTAATTTCTAAGGGAGTGGTGTTAATTTTAATCTTTAATAATAGGATGGAAAAAAATGGACTTTTTAGCTAGAGTTCAATATCTGATTTTTATATTTTACTGTCCTTCAGCCTCAGTAAAAAGCTAACATTAACTGGGGTTTCATTTCTGAAAATTTTTTGATTTAATAAAATTTCTGCACTCATATTTTCTGTAAGTTTGACTTAAGTTTTAGAGAATATCTAATCAGGCTGTGATGATCCAAATAAAGGGTTGAAACTCATTTCTATCTTTTGATAAATATTGTATCTTGTTTTTAATCTTTGCCTAATTTCTTCTTTTTAAACTTTCTTTTCTTTCTTTTCTTCTAACACAAAGATTCTGCTTTCCTCATGTAAACCTGTCCCTAAGTCCTATGTGCCAAAGCTTGGCAAGGGAGATGTAAAGGACAAGTTTGAAGCCATGCAGAGGGCCAGGGAAGAAAGAAATCAAAGGCGATCTAGAGACGAAAAGCAAAGAAGAAAAGAACAATATATTAGAGAGAGAGAATGGAACAGGAGAAAGCAGGAGGTCATTTTATTTTATTCTTGTGAAAATGTTCACGCTCTTCATATTTATGCATTATTCCCACTAACATTTCATATAGACCACGGTTAACACTGCTTTTCACGTCTGTGAGCTGACTTCCGTGTGCTCCCCTGTCCCTGTCTGCGGTCCCTCGCTGCCTACGCTGCCTGCAGTCAACCATGGTCCAAACCATCCAGCCCAGAGGCAAACTGAAGCTTTACATGCATTCCATTACAGTATACTTTTATAACTATCCTTTTATAATTATTTGTTCTTTGTCTCTTACTGTGCCGAATATATATTGTTTTATATGTATATATTTTTCATACAAGAAAAACAGCATGCACAGGACTTAGCATTGTCGGTGCTTTCAGGAACCCACGGGACCCTAGAGGGTTCTTCTGCAGTGTGGGGCAGAGGGGCTATTCTAGTATAATCTAGTCTAATTTTGAAACGTGTTCATATTTACTTATTCAACCACCTAG
Seq C2 exon
ATTAAAGAAATGCTTGCTTCTGATGATGAGGAAGAAAGTTCTCCTAAAATAGAAAAGGCTTATGTCCCAAAGCTAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039103:ENSMUST00000046045:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.908 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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