MmuINT0060688 @ mm9
Intron Retention
Gene
ENSMUSG00000031813 | Fam125a
Description
family with sequence similarity 125, member A [Source:MGI Symbol;Acc:MGI:1920961]
Coordinates
chr8:74069446-74069755:+
Coord C1 exon
chr8:74069446-74069565
Coord A exon
chr8:74069566-74069648
Coord C2 exon
chr8:74069649-74069755
Length
83 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CACTGTCCCCTGCTCCCCAGCAA
3' ss Score
5.9
Exon sequences
Seq C1 exon
GGACATTGGTGGCTTTGCCATCTGGTGCAAGAAATCCAAAGCCCCAAGGCCGGTGCCCAAGCCCCGCACGCTCAGCCAGGACATGCGAGGCCTCTCCCTGGACCCACCCAAAGAGCCCAG
Seq A exon
GTGAGGCTCAGGCACCCCCATGGGCAGATGGGCCAGGAAGAAGACTTCAGGCCTGACTGAAGTCACTGTCCCCTGCTCCCCAG
Seq C2 exon
CAAAGGAAGCCACCCAGAGCGGACCCTGTCCAGGCTGGGCTCTCGGGCCTCCACTCTACGGAGGACCGACTCCATCTATGAGGCATCCAGTCTCTATGGCATATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031813-Fam125a:NM_028617:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.585 A=NA C2=0.432
Domain overlap (PFAM):
C1:
PF102404=DUF2464=FE(15.9=100)
A:
NA
C2:
PF102404=DUF2464=FE(14.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCAAGAAATCCAAAGCCCCA
R:
TGCCTCATAGATGGAGTCGGT
Band lengths:
180-263
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: