MmuINT0111255 @ mm9
Intron Retention
Gene
ENSMUSG00000079662 | Ntn3
Description
netrin 3 [Source:MGI Symbol;Acc:MGI:1341188]
Coordinates
chr17:24344511-24344932:-
Coord C1 exon
chr17:24344744-24344932
Coord A exon
chr17:24344661-24344743
Coord C2 exon
chr17:24344511-24344660
Length
83 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
CTTATCATTTCTGTCCTCAGCTT
3' ss Score
8.93
Exon sequences
Seq C1 exon
CTTGCTCCTGCAACGGCCATGCGCGAAGATGCCGCTTCAACATGGAGCTCTACCGACTGTCCGGCCGCCGCAGTGGGGGCGTGTGCCTCAACTGCCGGCACAATACAGCTGGTCGTCACTGCCACTACTGCCGGGAGGGCTTCTATCGTGATCCAGGCCGTGTCCTGAGTGACCGTCGTGCTTGCAGAG
Seq A exon
GTGAGCCTGCCACCTATACACGTTCGTGATTTACTTCCCCAGAACCCCAGCTACAGTTCTGAGCTTATCATTTCTGTCCTCAG
Seq C2 exon
CTTGTGACTGCCACCCAGTTGGTGCTGCTGGCAAAACCTGTAACCAGACCACAGGCCAGTGTCCCTGTAAGGATGGTGTTACTGGCCTCACCTGTAACCGCTGTGCCCCAGGTTTCCAGCAGAGCCGTTCTCCTGTGGCACCTTGCGTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079662-Ntn3:NM_010947:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.039
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=WD(100=95.3)
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=94.1)
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:
GCACAATACAGCTGGTCGTCA
R:
TGAGGCCAGTAACACCATCCT
Band lengths:
182-265
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: