MmuINT0170593 @ mm10
Intron Retention
Gene
ENSMUSG00000020099 | Unc5b
Description
unc-5 netrin receptor B [Source:MGI Symbol;Acc:MGI:894703]
Coordinates
chr10:60778168-60778964:-
Coord C1 exon
chr10:60778784-60778964
Coord A exon
chr10:60778336-60778783
Coord C2 exon
chr10:60778168-60778335
Length
448 bp
Sequences
Splice sites
5' ss Seq
ATGGTGTGG
5' ss Score
2.28
3' ss Seq
TTGATGGGCCATCCCTACAGTGA
3' ss Score
5.21
Exon sequences
Seq C1 exon
GTGGAATGGCTCAAGAATGAAGATGTCATTGACCCCGCTCAGGACACTAACTTCCTGCTCACCATTGACCACAACCTCATCATCCGCCAGGCGCGCCTCTCAGACACGGCCAACTACACCTGTGTGGCCAAGAATATCGTGGCCAAGCGCCGGAGCACCACGGCCACAGTCATCGTCTATG
Seq A exon
GTGTGGATGGGTGTTTGTGGGCATGGGCTGTGATTATCCCGGGTGCCCTCTGGTGGGAGCTCTCGGTACTGTAGGGGGGCCTGAAGCAATATATCCCCTCCACTCTGCCCCACCCCCACCTCCAGGAGGCCAAATCCCAGGTACCCAGCCACACTCTGGGTGACCCTGGTTAGGTGTTACCCCTCTACCAAGAACCCCATCACACACTGGGTAGACCCTCATTAGGTGTTACCCCTCTATCAAGTTTACTGCGTCACTGTACATCAGGCAGGGATGAGACAGTGACTTCCTAGGCCCTCTCAGGGGCCAACAGTGTCCTCTCAGTGCCCAGTCCCACAGATGAATGGCTCCAACCAGAGTGGCTGGGTTACTAAAGGTGGGTGATGGGCTGAAGATAACCTGGAGGCAGCCAGAGCCATGTTAATCATTTGATGGGCCATCCCTACAG
Seq C2 exon
TGAATGGAGGCTGGTCCAGCTGGGCAGAGTGGTCACCCTGTTCCAATCGCTGTGGCCGAGGCTGGCAGAAGCGTACTCGGACCTGCACCAATCCAGCCCCACTCAATGGAGGCGCCTTCTGTGAGGGACAGGCCTTCCAGAAGACAGCTTGCACCACCGTGTGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020099:ENSMUST00000077925:5
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:
PF0767911=I-set=PD(63.7=95.1)
A:
NA
C2:
PF0009014=TSP_1=WD(100=89.5)
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:
GTGGAATGGCTCAAGAATGAAGA
R:
CACGGTGGTGCAAGCTGTC
Band lengths:
342-790
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