MmuINT0075628 @ mm10
Intron Retention
Gene
ENSMUSG00000067235 | H2-Q10
Description
histocompatibility 2, Q region locus 10 [Source:MGI Symbol;Acc:MGI:95929]
Coordinates
chr17:35470089-35470645:+
Coord C1 exon
chr17:35470089-35470179
Coord A exon
chr17:35470180-35470375
Coord C2 exon
chr17:35470376-35470645
Length
196 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TCACCGTGCGCCGCCCCCAGGCT
3' ss Score
8.48
Exon sequences
Seq C1 exon
AGACGCCCCGGATCCCAGATGGGGGCGATGGCGCCGCGCACGCTGCTCCTGCTGCTGGCGGCTGCCCTGGCCCCGACCCAGACCCAGGCAG
Seq A exon
GTGAGTGCGGGGTCGGGAGGGAAACAGCTTCTGCAGAGAGGGGCGGGGGCGGCACCAGGGAAGCCGCGTCCCCGCGTCGCCCACCGGACCCTCCGCCCCTTCTTCACCCGAGCCCCGCGCCCTGCTCCCCTCCCGGCCCGCGCACCCGCCCGGGGTCCGGAGAGGAGGTCCGGGTCTCACCGTGCGCCGCCCCCAG
Seq C2 exon
GCTCACACTCCATGAGGTATTTCGAAACCTCCGTTTCCCGGCCGGGCCTTGGGGAGCCCCGGTTCATTATTGTCGGTTACGTGGACGACACGCAGTTCGTGCGCTTCGACAGCGACGCGGAGACTCCGAGGATGGAGCCGCGGGCGCCTTGGATGGAGCAGGAGGGGCCGGAGTATTGGGAGCGGGAGACACAGAGAGCCAAGGGCAATGAGCAGAGTTTCCATGTGAGCCTGAGGACCCTGCTCGGCTACTACAACCAGAGCGAGAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000067235:ENSMUST00000174525:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.319
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(0.1=0.0)
A:
NA
C2:
PF0012913=MHC_I=PU(50.3=98.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGACCCAGACCCAGGCAG
R:
GGCTCACATGGAAACTCTGCT
Band lengths:
249-445
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types