MmuINT0006612 @ mm9
Intron Retention
Gene
ENSMUSG00000035279 | A430110N23Rik
Description
RIKEN cDNA A430110N23 gene [Source:MGI Symbol;Acc:MGI:3606211]
Coordinates
chr7:4878576-4879267:+
Coord C1 exon
chr7:4878576-4878884
Coord A exon
chr7:4878885-4879153
Coord C2 exon
chr7:4879154-4879267
Length
269 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAAA
5' ss Score
6.02
3' ss Seq
ACTTTGGTCCTCTCCCATAGGTC
3' ss Score
11.79
Exon sequences
Seq C1 exon
AGCGACTCCGCCTGGCTGATGGTCCTCATGGCTGCGCAGGACGCCTGGAGGTCTGGCACAGCGGGCGCTGGGGCACCGTGTGTGATGACGGATGGGACCTTCGGGATGCTGAAGTGGCCTGCCGTGTGTTAGGCTGCGGAGGGGCGCTGGCAGCCCCTGGGGGTGCCTTCTTCGGGGAGGGCACTGGGCCTGTATGGCTCAGTGAACTGAACTGTCGGGGCAATGAGGGTCAGCTGGGTATCTGTCCCCACCGGGGCTGGAAGGCCCATATCTGCTCTCATGAGGAGGACGCAGGCGTCGTCTGTGTAG
Seq A exon
GTAAAAAGATTCAAATTCCTCTTATGGTTATGGCCCCAGGAACCCTGCCCTTAGTTCCTGCAGATCTGAGTTGTCTAGAAGCTAAGCGGTAACCAACTCCAGATCCCCATAAGACCAGGTGCTCCCCTCCCAAGGACTCCCAGCTTATGAGCACTTATTTCTGAGCCACAGGAAATTCAGGCATCCCAGCTCCTCCTGTCCCAGGGGTCAAATGACCTTTCTACTCCTCCCCCCATCACTGGTCTCATAACTTTGGTCCTCTCCCATAG
Seq C2 exon
GTCAGCGTGCAGCTAACTCTAGAGAAGATTCAATGTCCCTGCTGGATGGGGATCCATGGCTGGCACTGTCTGGGGAGCTAAGCCCCAGCTCAGAGGAGCCCCCTATAACTCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035279-A430110N23Rik:NM_173008:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.615
Domain overlap (PFAM):
C1:
PF0053013=SRCR=WD(100=94.2)
A:
NA
C2:
NO
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:
GACCTTCGGGATGCTGAAGTG
R:
GGCTTAGCTCCCCAGACAGT
Band lengths:
298-567
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: