MmuINT0060684 @ mm9
Intron Retention
Gene
ENSMUSG00000031813 | Fam125a
Description
family with sequence similarity 125, member A [Source:MGI Symbol;Acc:MGI:1920961]
Coordinates
chr8:74066829-74067130:+
Coord C1 exon
chr8:74066829-74066956
Coord A exon
chr8:74066957-74067031
Coord C2 exon
chr8:74067032-74067130
Length
75 bp
Sequences
Splice sites
5' ss Seq
GCGGTAAGT
5' ss Score
11.37
3' ss Seq
ATGACCTGTGCGTCCCGCAGATC
3' ss Score
10.73
Exon sequences
Seq C1 exon
GGTCCCTCCGAGGGCTGTAGCTGCCTTCTGAGCTCCCAGGAAGGATGGATCCCGGGACGGACTCGGCGCCGCTTGCTGGCTTGGTTTGGTCGTCGGCCTCGGCGCCGCCGCCGCCGGGTTTCAGCGCG
Seq A exon
GTAAGTGGGAGCGCGCAAGGGTTGCGGGGACGGGCCAGGAAGGGGACGAAGTCCGATGACCTGTGCGTCCCGCAG
Seq C2 exon
ATCACCTGCACCGTGGAGGGCGGGACGGCCAGCTTCGGCCGAGGCTTCGCGCAGAAAGCCGGCTACTTCCTGTGCCTGAGCACGCTGGGCATCCCGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031813-Fam125a:NM_028617:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.298 A=NA C2=0.010
Domain overlap (PFAM):
C1:
PF102404=DUF2464=PU(22.0=71.4)
A:
NA
C2:
PF102404=DUF2464=FE(12.7=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:
TCTGAGCTCCCAGGAAGGATG
R:
CAGGAAGTAGCCGGCTTTCTG
Band lengths:
174-249
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: