MmuINT0061085 @ mm9
Intron Retention
Gene
ENSMUSG00000042788 | Fam166b
Description
family with sequence similarity 166, member B [Source:MGI Symbol;Acc:MGI:2445194]
Coordinates
chr4:43439892-43440711:-
Coord C1 exon
chr4:43440660-43440711
Coord A exon
chr4:43440583-43440659
Coord C2 exon
chr4:43439892-43440582
Length
77 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
AGCATCTCCCCCACCCCCAGGTT
3' ss Score
8.1
Exon sequences
Seq C1 exon
GCTTCCCCCTACTCCATGGATGATACAGATCCCCACAAGTTCTTCATGTCAG
Seq A exon
GTGAGAGGAAGTGGGTAGCAACCAAAGGCGAGGGGAGACCGCAGGACGTCTTGACTCAGCATCTCCCCCACCCCCAG
Seq C2 exon
GTTTCACGGGCTATGTGCCCCGTGCCCGCTTCCTCTTTGGCTCCAGCTTCCCTGTGCTTACCAACCAGGCATTGCAGGAATTTGGGCAGATGTGCTCACGGGGCCGGGCGCACAAGGACCCCAAACCTCTCTCCCCACTTCCCAGGCCCACGTTTCAGAATCTGGGTCTCCTACCTCACTACGGAGGCTACGTGCCAGGTTAGAAGAGCCCGTGAGGGGCTCCGGGAACTGCGGTGTGTGTGCGGGTGGGGGGTGCTTTGGCAACGGGAATTAACAGACACGGAGAGATGTCCGACCCTGGGATTTAGCTTTAGAGAGGAAACTCTGAGGCAGTTCAGTGGGGAGTTGGGAGCAGATTTTAAAGGGCAGTTTGGAGGGTCGACGCAACTGGCTTTTTCATGCCTCTGGCTATATACATGTCAGACTCTTGGCCACGCAGGATATAAGTTCCAGTTTGGCGGTACATTTGGGCATCTTACCCATGATGCTCTGGGCCTCAGCATTACTCAGAAACAGCTCCCGGCCTAAGTACCTGGATTCCAAGTTCTCCCTTCTCATCCTAACCCAGTGAACCTTTTGGAATGAAGAGAGGTGGGTCGGGGAGGGGCACAAAGAAAATGGCTTGGAGGCTGAGCACCTTTTTATTATTAGGTGTAATAAATAAATAATAAATAAATAAATACATACATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042788-Fam166b:NM_001162381:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.327 A=NA C2=0.295
Domain overlap (PFAM):
C1:
PF106294=DUF2475=PD(9.7=33.3),PF106294=DUF2475=PU(13.1=44.4)
A:
NA
C2:
PF106294=DUF2475=PD(85.2=77.6),PF106294=DUF2475=PU(32.5=19.4)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTCCCCCTACTCCATGGAT
R:
GAGAGGTTTGGGGTCCTTGTG
Band lengths:
183-260
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: