MmuINT0170573 @ mm10
Intron Retention
Gene
ENSMUSG00000025876 | Unc5a
Description
unc-5 netrin receptor A [Source:MGI Symbol;Acc:MGI:894682]
Coordinates
chr13:55004478-55006018:+
Coord C1 exon
chr13:55004478-55004656
Coord A exon
chr13:55004657-55004805
Coord C2 exon
chr13:55004806-55006018
Length
149 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
AGACTGCCTCTTCTTTGCAGCCA
3' ss Score
7.35
Exon sequences
Seq C1 exon
GACACGAGGTTTGCTGAAATGCTGGCTCTGGAGAGTGAAGGGGGGGTCCCAGCCCTGGTGGGCCCCAGTGCCTTCAAGATCCCCTTCCTCATTCGGCAAAAGATCATTACCAGCCTGGACCCACCCTGCAGCCGGGGCGCCGACTGGCGAACTCTAGCCCAGAAACTTCACCTGGACAG
Seq A exon
GTGGGTGGAGCTAGACAGAGGGAGGCTGGTTGGGCAAGCGAGGTAGACAGGAAGGAGGCCTGTAGGCTCTGTGCCACAGCCTCTAGTGGTGTATTTCAGGGCAGCCTGGAGTGAGGCCAGACTACTGACAGACTGCCTCTTCTTTGCAG
Seq C2 exon
CCATCTTAGCTTCTTTGCCTCCAAGCCCAGCCCTACAGCCATGATCCTCAACCTATGGGAGGCGCGGCACTTCCCCAACGGCAACCTCGGCCAGCTGGCCGCAGCTGTGGCCGGACTGGGCCAGCCAGATGCTGGCCTCTTCACCGTGTCAGAGGCCGAGTGCTGAGACCAGCCAGGCCGGTCACGCCTACACTCTCACCAGCTTTGGCACCTGCCAGGGACAGGCAAAAGCCAGACAGGGGCCCTACCCCCACACCCGGGGAGAGCTGCTTGGACAGGCCCCCCTCCTGGCTGAAGTTGTCCCTCGATGCTGGTCCTTCAGACCCTGCCCAAACTCCATCCCTCCATGGCCTGCCTGGCCAGGTTGGTTTAGCCACCTGTTCTCGCTCTGCCCTGGTCCCGGGGCCCAGAGTGGACAGTGCCTGGAGCCTGGGCTGAGCCCAGCCCATCTGTGTGTGTGTGTGTATGTGTGTGATGCTACCTCTCTTCCTGTCCCTTGCCAGGGGCCCCGCATACACACAGCATGCGCACACATGCTGGGCTTGGGACACGGCCCCCAGAGCTCCTGCCTGAGGTGGGCCTTATGCAAACATTTCTGTGCCTGCTGGGTAGGGGTCTATTTGAGGGGCCTGGCTTCAAGCCTGGGGGGACTAAGGGTCCCAGCTGGACAGGGGCTGGCCCTTGGATTCAGGCACACGATCACCACACAGGCGTGTGTTCATGCATGCCTCGTGTGCTCATCTCACACGCACCCCTCTCCCAGGTCATGCAGGACCCCTCCCCCCACCACACACACATCTCATGCTGTGCACCCGGAGGCTGCTCACGTCTCTCACACCCGGTGTCGGTGTCGGTACACATCTGCCTCTCACATGCTGCCCTTCTCCCACCCACCCAGGGACACCCGACGGCTCCTCCCTGATCCTTTCCCTGTACCCCGGCCTCGAGGTGCCCTGCCCAGCGGGGCGTGTGAATATGCAATGGGAGTCCCGGGCTGTACAATGGCAAGTGTGTGTGCCGTGGCGTGCCCGTTCCTGGGGCTGGCCAATGCCCCTGTGTGGGGCCTGTTGTGTGAAGCTTGTGTCCTGACTCTGTCTTAAGTGCATTCCTGCACTTACACTTGGCCTTATGTACACAGCCTTGCCCGGCTGCCGGGGCACGTAGGGATTTTAGCGGATGTGAATGTAAATAAATTATATATATATATTGCTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025876:ENSMUST00000026994:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0053117=Death=PU(36.0=45.0)
A:
NA
C2:
PF0053117=Death=PD(62.7=83.9)
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:
CCCCTTCCTCATTCGGCAAAA
R:
GGTGAAGAGGCCAGCATCTG
Band lengths:
244-393
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