MmuINT0170576 @ mm10
Intron Retention
Gene
ENSMUSG00000025876 | Unc5a
Description
unc-5 netrin receptor A [Source:MGI Symbol;Acc:MGI:894682]
Coordinates
chr13:54996160-54996584:+
Coord C1 exon
chr13:54996160-54996263
Coord A exon
chr13:54996264-54996403
Coord C2 exon
chr13:54996404-54996584
Length
140 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
GTCACGGCTTCTCCCCCTAGGTG
3' ss Score
11.28
Exon sequences
Seq C1 exon
ATTTGCGCAAGAACTTTGAGCAGGAGCCGCTGGCCAAGGAAGTGTCACTGGAGCAAGGCATTGTGCTACCTTGTCGCCCCCCGGAAGGAATCCCCCCAGCTGAG
Seq A exon
GTGAGTGGAGGGTGCGGGCTTCCCAGACCTCTATCCTACCTAAAGCTCAGACTCCTGGCTGCCACCTCCCCAGTGGTCGCTCTATACCCTGTTCAGGCCAGCACGGGCCAGCCGTGTAGTGTCACGGCTTCTCCCCCTAG
Seq C2 exon
GTGGAGTGGCTCCGAAATGAGGACCTCGTGGACCCCTCCCTCGACCCCAATGTGTACATCACACGGGAGCACAGCCTAGTCGTGCGGCAGGCCCGCCTGGCCGACACTGCCAACTACACCTGCGTGGCCAAGAACATCGTGGCCCGTCGCCGAAGCGCCTCTGCGGCCGTCATTGTTTATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025876:ENSMUST00000026994:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.008
Domain overlap (PFAM):
C1:
PF0767911=I-set=PU(34.1=88.6)
A:
NA
C2:
PF0767911=I-set=PD(63.7=95.1)
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:
GGAAGTGTCACTGGAGCAAGG
R:
TAAACAATGACGGCCGCAGAG
Band lengths:
246-386
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