MmuEX6077619 @ mm10
Exon Skipping
Gene
ENSMUSG00000054128 | H2-T3
Description
histocompatibility 2, T region locus 3 [Source:MGI Symbol;Acc:MGI:95959]
Coordinates
chr17:36187251-36189870:-
Coord C1 exon
chr17:36189601-36189870
Coord A exon
chr17:36189177-36189452
Coord C2 exon
chr17:36187251-36187526
Length
276 bp
Sequences
Splice sites
3' ss Seq
GACTAGGAGAGGGGGGCCAGGCT
3' ss Score
-17.63
5' ss Seq
CAGGTGCGT
5' ss Score
9.73
Exon sequences
Seq C1 exon
GCTCACACTCGCTGAGGTACTTCTACACCGCCTTGTCCCGACCTGCAATCAGCGAACCGTGGTACATAGCTGTGGGCTACCTGGATGACACTCAGTTCGTGCGCTTCAACAGCTCAGGGGAGACTGCGACATATAAGCTAAGTGCGCCATGGGTGGAGCAAGAGGGGCCCGAGTATTGGGCGAGAGAGACAGAGATCGTCACAAGCAATGCACAGTTTTTCCGCGAGAATCTGCAGACTATGCTGGACTACTACAACCTGAGTCAAAATG
Seq A exon
GCTCTCACACCATCCAGGTGATGTATGGCTGTGAGGTGGAGTTCTTCGGGAGCCTCTTCCGCGCTTATGAGCAGCATGGCTATGATGGCCGCGATTACATTGCCCTCAATGAAGATCTGAAAACGTGGACAGCAGCAGACACGGCAGCAGAGATCACCAGAAGCAAGTGGGAGCAGGCTGGTTATACAGAGCTCCGTAGGACCTACTTGGAGGGCCCATGCAAGGATTCCCTGCTCAGATACCTGGAGAACAGAAAAAAGACACAGGAGTGCACAG
Seq C2 exon
ATCCTCCAAAAACACACGTGACCCATCACCCCAGACCTGAAGGTTATGTCACCCTGAGATGCTGGGCCCTGCGCTTCTACCCTGCTGACATCACCCTGACCTGGCAGTTGAATGGGGAGGAATTGATTCAGGACACGGAGCTTGTGGAGACCAGGCCTGCAGGGGATGGAACCTTCCAGAAGTGGGCAGCTGTGGTGGTGCCGCTTGGGAAGGAGCAGAAATACACATGTCATGTGTACCATGAGGGGCTGCCTGAGCCTCTCACCCTGAGATGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000054128_CASSETTE2
Average complexity
S*
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.004 A=0.035 C2=0.257
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(95.7=98.9)
A:
PF0012913=MHC_I=PD(3.2=6.1)
C2:
PF0765410=C1-set=WD(100=90.3)
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGTCACAAGCAATGCACAGT
R:
ATTTCTGCTCCTTCCCAAGCG
Band lengths:
297-573
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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