MmuINT0111257 @ mm9
Intron Retention
Gene
ENSMUSG00000079662 | Ntn3
Description
netrin 3 [Source:MGI Symbol;Acc:MGI:1341188]
Coordinates
chr17:24344153-24344388:-
Coord C1 exon
chr17:24344338-24344388
Coord A exon
chr17:24344228-24344337
Coord C2 exon
chr17:24344153-24344227
Length
110 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
TCTCCACTCTTTCCCCCTAGACT
3' ss Score
11.77
Exon sequences
Seq C1 exon
AGACTCCTGTCCCTGGACCCACCGAAGAAAGCAGTCCTGTGGAGCCACAGG
Seq A exon
GTGAGTGGACACCAGAGCCCAGACTGGCCTGGGGAAGAGGGCCCTAGCTAAAGCAGACCAGTGTGGGGTAGAGGCATGGGAATCTGCTAGTCTCCACTCTTTCCCCCTAG
Seq C2 exon
ACTGTGAGTCACATTGCAGACCTGCGCGTGGCAGTTACCGAATCAGCCTGAAGAAGTTCTGCCGGAAGGACTATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079662-Ntn3:NM_010947:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.667 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0175916=NTR=PU(7.0=30.8)
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:
GACTCCTGTCCCTGGACCC
R:
AGTCCTTCCGGCAGAACTTCT
Band lengths:
122-232
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: