MmuINT0170568 @ mm10
Intron Retention
Gene
ENSMUSG00000025876 | Unc5a
Description
unc-5 netrin receptor A [Source:MGI Symbol;Acc:MGI:894682]
Coordinates
chr13:55002466-55003001:+
Coord C1 exon
chr13:55002466-55002553
Coord A exon
chr13:55002554-55002832
Coord C2 exon
chr13:55002833-55003001
Length
279 bp
Sequences
Splice sites
5' ss Seq
GAGGTGTGT
5' ss Score
6.14
3' ss Seq
CCCATGTTTCCCCACTTGAGGTT
3' ss Score
3.97
Exon sequences
Seq C1 exon
GAATCAGCCTCCTCATACCCCCGGACGCCATCCCCCGAGGAAAGATCTACGAGATCTACCTCACTCTGCACAAGCCAGAAGACGTGAG
Seq A exon
GTGTGTGCCCTGCCTGCTGTGGTGGTGGGGGGGGGGGGAGGGCACCGTCTGCTGCTCCTATCGCTGGAACCACCCCAATTCCCCGCCCAGCACTGCTGTACCTGTTCTGACCTGGCCCGAGGGAGCACAGGGGATGAGGCGCACTTAAGCTCACCCTGATTTGCAACTTCCGTCCTTACGGTGTCAACCACCCCACTGCAGAGTCTGTCTCCTAACCCCACGGTCTCTAGGACTGGCCACTGACGCCTTTCCCTCTCCACCCATGTTTCCCCACTTGAG
Seq C2 exon
GTTGCCCCTAGCTGGCTGTCAGACCCTGCTGAGTCCTATCGTTAGCTGTGGGCCCCCAGGAGTCCTGCTCACCCGGCCAGTCATCCTTGCCATGGACCACTGCGGGGAGCCCAGTCCCGACAGCTGGAGCCTGCGCCTCAAAAAGCAGTCCTGTGAGGGCAGCTGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025876:ENSMUST00000026994:10
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=0.000
Domain overlap (PFAM):
C1:
PF0079115=ZU5=FE(28.2=100)
A:
NA
C2:
PF0079115=ZU5=PD(50.5=91.2)
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:
AATCAGCCTCCTCATACCCCC
R:
CAGCTGCCCTCACAGGACT
Band lengths:
252-531
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