MmuINT0006615 @ mm9
Intron Retention
Gene
ENSMUSG00000035279 | A430110N23Rik
Description
RIKEN cDNA A430110N23 gene [Source:MGI Symbol;Acc:MGI:3606211]
Coordinates
chr7:4879987-4881156:+
Coord C1 exon
chr7:4879987-4880295
Coord A exon
chr7:4880296-4880838
Coord C2 exon
chr7:4880839-4881156
Length
543 bp
Sequences
Splice sites
5' ss Seq
CCGGTATGT
5' ss Score
9.2
3' ss Seq
CCTCTGTCCTCCTGTTTCAGGTC
3' ss Score
13.17
Exon sequences
Seq C1 exon
AGCGGCTGCGACTGGTCTCAGGTCCCCACGGATGTGCCGGCCGCCTGGAAGTCTGGCACGGTGGACGTTGGGGCACTGTCTGTGATGATGGATGGGACCTCCGAGATGCAGCGGTGGCCTGCAGGGAGCTGGGATGTGGGGGAGCGCTGGCCGCCCCTGGGGGTGCCAGATTTGGACCTGGTGAGGGACCTGTGTGGATGGATGACGTGGGGTGTGGAGGAGGAGAGGAGGCCCTCCGAGACTGTCCCCGAAGCCCCTGGGGCCGGAGCAACTGTGACCACACCGAGGATGCAGGGCTGGTCTGCACCG
Seq A exon
GTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTGTGTGTGTGTGTGTGTGTGTATATATATATATATATATATATATATATATATATATATATACATACATACATACATACATATATGTATGGGCAGCTACCCGCTCTTCAGATCTCAGCTCCTCCCTCCCCCAGGAAGCAGTAAAAGGCCTAGCCTCGGGTCTGTCTCTCTACACATTCTCTGGGAGAGGCTTAGCCTGCTGGGCCTCAGCTTTCTTGAGGGAGCAACTAGAAACTGGGACCAAGAGTAAGGGGCCATGGAAGGGCACTTGGGTATTTCCTCCTCCATTGCTCCTCTCCTTCTTCTCCCTCACTCCCTGTCCCTCTTGCCTTCCTCCAGCCTTCTATTCCCTGTCAGCGCCCATCCTGCTTCTTCAGTGGTCTAACCCAGTGTCTAATGTGACCCTTGCAAGCCTACTCTAGTTTTCCTTCTTGGTATAAGTGTAGGCACTCATCCATTCTAACCACTTATCACCCTGACCTCTGTCCTCCTGTTTCAG
Seq C2 exon
GTCCTGCACCCAGGATACGCCTTGCTGATGGTCCCCACGGCTGTGCTGGCCGCCTGGAGGTGTGGCATGGTGGACGATGGGGGTCGGTGTGTGACGATGCCTGGGATCTTCGCGATGCTGCTGTGGCCTGCAAGGAGCTGGGCTGTGGGGGTGCCCTGGCCGCCCCAGGGGGCGCCTTCTTTGGAGAGGGGACTGGACCCATCATCCTGGATGATCTCAGATGTCGAGGAAATGAGACAGCCTTGCGATTCTGTCCTGCGAGGCCCTGGGGTCAGCACGACTGTCACCACCGGGAGGATGCTGGGGCCGTGTGTGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035279-A430110N23Rik:NM_173008:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.192 A=NA C2=0.009
Domain overlap (PFAM):
C1:
PF0053013=SRCR=WD(100=94.2)
A:
NA
C2:
PF0053013=SRCR=WD(100=91.6)
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:
AGATTTGGACCTGGTGAGGGA
R:
TCCAGGATGATGGGTCCAGTC
Band lengths:
353-896
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: