MmuINT0111270 @ mm10
Intron Retention
Gene
ENSMUSG00000070564 | Ntn5
Description
netrin 5 [Source:MGI Symbol;Acc:MGI:2685330]
Coordinates
chr7:45691412-45691937:+
Coord C1 exon
chr7:45691412-45691561
Coord A exon
chr7:45691562-45691883
Coord C2 exon
chr7:45691884-45691937
Length
322 bp
Sequences
Splice sites
5' ss Seq
AACGTGAGT
5' ss Score
9.54
3' ss Seq
TTTCTCCTCTGGTCTGACAGGAA
3' ss Score
10.02
Exon sequences
Seq C1 exon
CCTGCCAGTGCCACCCAATTGGAGCAACGGGAGGGATGTGCAACCAGACCAGTGGCCAGTGCTCCTGCAAGTTAGGGGTCACAGGCCTGACATGCAATCGCTGTGGTCCTGGCTACCAGCAGAGCCGCTCACCCAGGATGCCCTGCCAAC
Seq A exon
GTGAGTCCTATGGCACACGAAGCCGTAAGTCCTGAACTCAGGTCAGGGGAGATGGCATCAAGGTCTCTGGGGACAACTGCAGTGTGTGGCTTTGGTTTCTGGGTGGCAGTGGATGAACTCTGAATCGTCTGAGAATTCAGGTGGGAAACTACAGACTCTTCAATCCTAGAAAGAAGGCCAAGGTTTTGGACCCCTTGTTCTTACACGGGAAGGGGTGGGTCCTGGTGAGGGGGCAGGATGGTTGTACCCTAGAGAGTCACATGCCTGGATTCCTCCTGCTGATTTCTAGAGTTTACACTGCATTTCTCCTCTGGTCTGACAG
Seq C2 exon
GAATTCCAGAGGCAACAACTACCCCTGCTACTACCCCTGTTGCATCTCGATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000070564:ENSMUST00000182750:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.111 A=NA C2=0.702
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=WD(100=96.1)
A:
NA
C2:
NO
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:
CCAGTGCCACCCAATTGGAG
R:
CTGATCGAGATGCAACAGGGG
Band lengths:
200-522
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