MmuINT0006608 @ mm9
Intron Retention
Gene
ENSMUSG00000035279 | A430110N23Rik
Description
RIKEN cDNA A430110N23 gene [Source:MGI Symbol;Acc:MGI:3606211]
Coordinates
chr7:4888510-4889234:+
Coord C1 exon
chr7:4888510-4888824
Coord A exon
chr7:4888825-4889066
Coord C2 exon
chr7:4889067-4889234
Length
242 bp
Sequences
Splice sites
5' ss Seq
CTGGTACCA
5' ss Score
2.73
3' ss Seq
GCTACCTGTCTCTCCCCCAGGCT
3' ss Score
9.59
Exon sequences
Seq C1 exon
GTCCCTTCCGGGTTCGTCTGGCTGATGGGCCCAACAGGTGTGCTGGCCGGCTAGAGGTGTGGCATGCTGGACTCTGGGGAACAGTCTGTGATGACAGCTGGGACATCCGGGATGCCACAGTGGCCTGCTGGGAGCTGGGTTGCGGAAAGGTCCGGCCCCGAGTAGGCAAAACTCACTATGGCCCTGGCACTGGGCCCATCTGGTTGGATGACATGGGCTGTAAAGGAAGTGAGATGTCACTGAGTGACTGCCCCTCGGGGGCATGGGGGAAGCACAACTGTGACCACGAAGAAGACGTGGTGCTCACCTGCACTG
Seq A exon
GTACCAGGGAACAGTGAGGGAGGCCGAGGTGGTGGAGTTAGAGTGGGACAGAATGGTGTCTCGTGGGCTAGAGGGGACTCAGCGTTGGTGTCTAAAGGTCTAAGGAGCGGGCTGGAGGGGGCTCAGCATGAGAGCAGGAAAGGGTTACTTCAGGAGACTCTGGCAGGGAAGGGAAGCCCGGGGGCGGGGGGGGGGGACCTCAGCTAGCAGGAAGAGGCACAAGCTACCTGTCTCTCCCCCAG
Seq C2 exon
GCTACACGGGTGATGACGATTATCCTTCCTGGACCTGGGACCCTACTTCCGGAGAGGACCTGACCAAAGGGACCACAGTGGCTGCGCGGCCTGGACATACACTTTCCTGGGCTACCACTACAAACACTGAAGTCCCCTCTCCAGCAACACAGAACCTTCCAGACACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035279-A430110N23Rik:NM_173008:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.170 A=NA C2=0.842
Domain overlap (PFAM):
C1:
PF0053013=SRCR=WD(100=92.5)
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:
CCCCGAGTAGGCAAAACTCAC
R:
CTGGAGAGGGGACTTCAGTGT
Band lengths:
304-546
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: