MmuINT0060691 @ mm9
Intron Retention
Gene
ENSMUSG00000031813 | Fam125a
Description
family with sequence similarity 125, member A [Source:MGI Symbol;Acc:MGI:1920961]
Coordinates
chr8:74071477-74071925:+
Coord C1 exon
chr8:74071477-74071533
Coord A exon
chr8:74071534-74071660
Coord C2 exon
chr8:74071661-74071925
Length
127 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGT
5' ss Score
9.65
3' ss Seq
CCACCCCCTCTGCTCCCCAGTAT
3' ss Score
6.16
Exon sequences
Seq C1 exon
AACTTGTCTGCTTTTGGGGACCTGACGATCAAATCACTGGCAGACATTGAGAAGGAG
Seq A exon
GTAGGTGCAGGGTATGTGAGGTGCTGGGACCCCACCCTTTGCCCTAGCCTGCCTCCACCCCTCAGTCATTCCCCAACGCCCCCCAGGCCCCAAGCCATCCTTTAGCCCCACCCCCTCTGCTCCCCAG
Seq C2 exon
TATAACTATGGCTTCGTGGTGGAGAAGACTGCAGCTGCACGCCTGCCTCCCAGCGTCTCATAGACCAGCCCCAGGTGCCACCTGGTCGCCTCCTGCCTTGCAGATACTGCTGATTGACACCCAGCCTCTCTGTCCAACTGCTTGCACAAAGGGTCTCTTGCCTGGTGGTGCAGGGGCGGCCTGGGCAGAGCAGTGGCCTTCTCTCACAGAAGTCTGTGTCTAGAGGCCACATATGCACCAGCAGTAAACGCTACCTGGGACCCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031813-Fam125a:NM_028617:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.200
Domain overlap (PFAM):
C1:
PF102404=DUF2464=FE(7.1=100)
A:
NA
C2:
PF102404=DUF2464=PD(2.8=33.3)
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:
ACCTGACGATCAAATCACTGGC
R:
TCTGTGAGAGAAGGCCACTGC
Band lengths:
248-375
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: