MmuINT0107880 @ mm9
Intron Retention
Gene
ENSMUSG00000039103 | Nexn
Description
nexilin [Source:MGI Symbol;Acc:MGI:1916060]
Coordinates
chr3:151911144-151912665:-
Coord C1 exon
chr3:151912624-151912665
Coord A exon
chr3:151911333-151912623
Coord C2 exon
chr3:151911144-151911332
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-Nexn:NM_199465:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.794
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:
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: