MmuEX0022288 @ mm10
Exon Skipping
Gene
ENSMUSG00000079507 | H2-Q1
Description
histocompatibility 2, Q region locus 1 [Source:MGI Symbol;Acc:MGI:95928]
Coordinates
chr17:35323467-35324048:+
Coord C1 exon
chr17:35323467-35323601
Coord A exon
chr17:35323780-35323812
Coord C2 exon
chr17:35324001-35324048
Length
33 bp
Sequences
Splice sites
3' ss Seq
CACAGCTTTTCTTCTCACAGGTG
3' ss Score
9.69
5' ss Seq
CAAGTTAGT
5' ss Score
4.22
Exon sequences
Seq C1 exon
AGCCTCCTCCATACACTGTTTCCAACATGGTAATCATAGCTGTTCTGGTTGTCCTTGGAGCTGTGATAGTCATTGGAGCTGTGGTCATCATTGGAGTTATGGTGTCTTTTGTGATGAAGAGGAGGAGAAACAAAG
Seq A exon
GTGGACAAGGAGAGGACTGTGCTCTGGCTCCAA
Seq C2 exon
GCAGGGACAGCGCCCAGAGCTCTGATATCTCTCTCCTAGATTGTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079507-'6-7,'6-6,7-7
Average complexity
C2
Mappability confidence:
67%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.583 C2=0.000
Domain overlap (PFAM):
C1:
PF066236=MHC_I_C=PU(6.9=4.3)
A:
PF066236=MHC_I_C=FE(37.9=100)
C2:
PF066236=MHC_I_C=PD(51.7=88.2)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTGTTCTGGTTGTCCTTGG
R:
CTCTGGGCGCTGTCCCTG
Band lengths:
117-150
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