MmuINT0062060 @ mm9
Intron Retention
Gene
ENSMUSG00000054942 | Fam73a
Description
family with sequence similarity 73, member A [Source:MGI Symbol;Acc:MGI:1924567]
Coordinates
chr3:151953424-151953873:-
Coord C1 exon
chr3:151953755-151953873
Coord A exon
chr3:151953497-151953754
Coord C2 exon
chr3:151953424-151953496
Length
258 bp
Sequences
Splice sites
5' ss Seq
GAGGTATCA
5' ss Score
6.35
3' ss Seq
CTCTGCTCTTCGTGATGCAGAAC
3' ss Score
7.56
Exon sequences
Seq C1 exon
CTCGCAGAGCAGAGAGAAGCGCAGCAGACCTTCAGCCTGGAGTCTTTTTGTCCCTGCCCTTTCTACGAAGAAGCTATGCATTTAGTTGAAGAAGGAAAAATTTACTCCAGAGTGCTGAG
Seq A exon
GTATCATTCCAGCTTAGTTCACAGCTATTATTTTATTATTTTATTTCTTTAGTAAGGTACTGTTGGTTTTTTGTGTGACAATTATTAAATCATGCTATGAATATGGGAAAGATACGTTTTGGTCCAAGTAGATTTTTGTGCAGCCTGCCAGTGGCAGAGGACATGTGCTTTCCATTAAGGGCCTGCTTAGGTCCAGGTCTGTGGGAGACTTGCTCGTGGCTGGAACCTAACAGTTACTCTCTGCTCTTCGTGATGCAG
Seq C2 exon
AACGGAGATGCTGGAGTGCCTGGGAGACAGTGACTTCCTCGCCAAACTTCACTGTATCCGGCAGGCTTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000054942-Fam73a:NM_174868:9
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF102654=DUF2217=FE(7.1=100)
A:
NA
C2:
PF102654=DUF2217=FE(4.4=100)
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:
CAGAGCAGAGAGAAGCGCAG
R:
CTGAAAAGCCTGCCGGATACA
Band lengths:
188-446
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: