MmuINT0170577 @ mm10
Intron Retention
Gene
ENSMUSG00000025876 | Unc5a
Description
unc-5 netrin receptor A [Source:MGI Symbol;Acc:MGI:894682]
Coordinates
chr13:54996404-54997360:+
Coord C1 exon
chr13:54996404-54996584
Coord A exon
chr13:54996585-54997192
Coord C2 exon
chr13:54997193-54997360
Length
608 bp
Sequences
Splice sites
5' ss Seq
ATGGTGGGT
5' ss Score
6.18
3' ss Seq
GTCCTTCTCTGTCCGGCCAGTGA
3' ss Score
7.45
Exon sequences
Seq C1 exon
GTGGAGTGGCTCCGAAATGAGGACCTCGTGGACCCCTCCCTCGACCCCAATGTGTACATCACACGGGAGCACAGCCTAGTCGTGCGGCAGGCCCGCCTGGCCGACACTGCCAACTACACCTGCGTGGCCAAGAACATCGTGGCCCGTCGCCGAAGCGCCTCTGCGGCCGTCATTGTTTATG
Seq A exon
GTGGGTCCTGGGCTCCCCAGTCACAGGAAGAGGTACTGAGGTGCCAACAGGGACTTGGTGTGTGGCTCAGAGGACGGAAAGGCATGGAGCAAGAACCAGGCTAACCAGACAGTGGCTTGACTAGGAAAGAGAGCAGAAGTGTATCTGGGCAAAGGGATGGGACATGTGGGTCACTTGTGAGTGGGGAGCATGGTGCAAGAGACGAAGAGACAAGAGGAGGCTCAGAGGGACGTAACACATCAACCTTGGGCGTCTCAGTCCCCGAAATGGGAGAGAGCGCCTCAGAATGAGACGCCTTCCTCCCCCAAGAGCAGAAGGAGGTCGGATAGGAGCTGCCCTGCGAGAAGCTGGGTTCTAGCTGGAGGTGCCCTGTGACCTGTAGTTTAGTCTGGCCACCCTGACACTTGCCAAGAGTAGAGTATCTGAAGGCTCTGCCAGCCCCTGGGGCCCAGCAGCCTAGGCTTGGTCCTCCTCAGGGTTTCTCCAGGCACAGGAGCAGCCCACTCACCCCGAGCTTATAAGAACTTTGCCCTCCTGCCCCATCCCTTGGCCCAGCATGTCTGAGGAAGCCCCCGCTCCCTGACCCCAGTCCTTCTCTGTCCGGCCAG
Seq C2 exon
TGAACGGTGGGTGGTCGACGTGGACCGAGTGGTCCGTCTGCAGTGCCAGCTGTGGGCGTGGCTGGCAGAAACGGAGCCGGAGCTGCACCAACCCGGCACCTCTCAACGGGGGCGCCTTCTGTGAGGGGCAGAATGTCCAGAAAACAGCCTGCGCCACTCTGTGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025876:ENSMUST00000026994:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.008 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=87.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGTGGCTCCGAAATGAGGAC
R:
CGCAGGCTGTTTTCTGGACAT
Band lengths:
331-939
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