MmuINT0107880 @ mm10
Intron Retention
Gene
ENSMUSG00000039103 | Nexn
Description
nexilin [Source:MGI Symbol;Acc:MGI:1916060]
Coordinates
chr3:152248180-152249701:-
Coord C1 exon
chr3:152249660-152249701
Coord A exon
chr3:152248369-152249659
Coord C2 exon
chr3:152248180-152248368
Length
1291 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACA
5' ss Score
8.1
3' ss Seq
ATTATGTATCTTACACATAGGAA
3' ss Score
6.43
Exon sequences
Seq C1 exon
ATTGAGGACATAAACAATACGGGAACCGAGTCCGCATCAGAG
Seq A exon
GTAACAGACATTTCCTTTAATGAACATTCACTGAATACCTGGTTCACAGAGACACGTAGAGGCTTTTACTTCACTACTGAGTATAAATATCACAATAACAAAAGTCAATGGTTTGCAAAGGCAAGAGTATACTTTGACTCTTACAAGTAGTTCAAAGAAAAGTATGCTTCTGCCTGCCCGGCTGGGCCATGAAGACCGCGTCCACGAGTCTTTTAGGGACACACGTTTCCTGAACTAACATCTAAAGCTGCTGAAAGCTGACATTTTAAAAGGGATTTTACTTTCCACCATTTGTCCTCTTTCCTCACAGTCCCTAAGAGCTCATGTTCTGGTTTTCACATACTAGCGTAGAGAGGAGTGTGTACTACAATGAAGGAATGTCCAGCCATAAAAACAGCCCAGTTAACTAGCAAAGTTAAAAATCCAGCCAACCAATTTGATGGTGTGCCTAAAATTATGATACAAAAGTTGGAAAAATTTTAATTTAGGGGCATATGTTATACTTTATAATCTTTATTTTTGAAAAAAGTTAAGAGATAACGATAAATTTGTAATAAAACCAATTAAAATCGATTTTGAGAATGCATTTAGCCATGTGTAGTGGTGCAGGGTTTTAATTCTAGCATTAAGGAGGCAGAGGCAGGTGCATCTCTGTAGTTCAAGGCCAGCCTGGTCTACATAGCAAGTTCCAGGATAGTCAGAACTACATAGAGAGACCTTGTCTCAACAAAGAAACCCAAGAATTTGTTTTAATCATTAATAGGATAAATGCTTTACAGTTTTATCTATATTGTGAGTGTTAGTACATCACTTGGGTGAATATTCAATGGCTTTTTTCATTAAACACTACTTTATTAAGTACTGAAAAGCTTGGATGGAGAAGCAGATCATGGAGTAAACTTTGTTGTTTGTTTAACCATAAACTATCCACCATCAAATTGGTTTGAAGTATGCTCACATGCACAACACCTTTTGTGCAATTAATGTAGAGTGTCTAAAGTAAGTTACTTAACCAGGCAAATCAATTCTATCTTTCAAATCATAGACTGCTCCTTGAAACTGCCATCAGTGGATCTCAGTAAAACTGATTCATGCATAGTGAGTTTAGAGAAAAATGTAGTTAATAGTAACGAGTTTAAGAATAAGGTTTTTTTTTTTTGTTTTGTTTTTTGTTTTGTTTTGTCCTTTATAGCCTTGACAGCAATGTAATTCACCACTTATGGAGGTGAAGTACCCTACCACCTACATTTTTATTAAGGATATGGATGCTAATTATGTATCTTACACATAG
Seq C2 exon
GAAGGAGATGACTCACTACTTATAACAGTGGTACCTGCCAAATCATACAAAACACCTGGAAAAACAAAGGATCCTGAGGACCTGGACAGAGAAGAAGGAAATGGGAGAACCAACCATGAAGAAGATAAAATGAGATATGAAGAAGAGTGCCGAGTTCTCAAAGAAGCAAAATGTCTTTCATTAGTCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039103:ENSMUST00000046045:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.781
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:
TTGAGGACATAAACAATACGGGA
R:
CATGACTAATGAAAGACATTTTGCTT
Band lengths:
230-1521
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