MmuINT1024613 @ mm10
Intron Retention
Gene
ENSMUSG00000070564 | Ntn5
Description
netrin 5 [Source:MGI Symbol;Acc:MGI:2685330]
Coordinates
chr7:45691047-45691561:+
Coord C1 exon
chr7:45691047-45691235
Coord A exon
chr7:45691236-45691411
Coord C2 exon
chr7:45691412-45691561
Length
176 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGT
5' ss Score
7.93
3' ss Seq
TCTTGTGTTTTGTCACGAAGCCT
3' ss Score
3.81
Exon sequences
Seq C1 exon
CCTGTTCCTGCAATCAGCATGCCCGCCGCTGCCGATTCAACTCCGAGCTATTCAGGTTGTCAGGTGGCCGTAGTGGGGGTGTGTGTGAGCGGTGCCGCCACCACACAGCTGGGCGGCACTGTCACTACTGCCAGCCAGGGTTCTGGAGGGACCCGAGCCAGCCCATCACTAGTCACAAGGCATGCAGGG
Seq A exon
GTGAGTGTGGCCTGAAGCCAAGCTGAAGGGGAAAGAGCAGAGCTAGGATTCTGTAATGGCAGGTACGGAGGTGGTTGTAAAGGAGGCGGAGTTTAGATTGTCGGGTTTGGGGACCAGGACATGGATTTTGTGGGGAACCTATTGGCCCCGAGTAACTCTTGTGTTTTGTCACGAAG
Seq C2 exon
CCTGCCAGTGCCACCCAATTGGAGCAACGGGAGGGATGTGCAACCAGACCAGTGGCCAGTGCTCCTGCAAGTTAGGGGTCACAGGCCTGACATGCAATCGCTGTGGTCCTGGCTACCAGCAGAGCCGCTCACCCAGGATGCCCTGCCAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000070564:ENSMUST00000182750:3
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=0.111
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=WD(100=95.3)
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=96.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCCGATTCAACTCCGAGCTA
R:
TGTGACCCCTAACTTGCAGGA
Band lengths:
243-419
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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