MmuALTA1037448-3/3 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000054128 | H2-T3
Description
histocompatibility 2, T region locus 3 [Source:MGI Symbol;Acc:MGI:95959]
Coordinates
chr17:36189601-36190220:-
Coord C1 exon
chr17:36190050-36190220
Coord A exon
chr17:36189759-36189870
Coord C2 exon
chr17:36189601-36189758
Length
112 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TCACCACATGCTGCCCCCAGGCT
3' ss Score
7.28
Exon sequences
Seq C1 exon
GTTGAGAGCAGGTACTTAGAAGATGCAATAAAACTCTCTGAGATTGCAAGTTACAAAGTCCAGGACTTTATACAACTTCAGATTTCCCTAACATGAGGATGGGGACCATGGTGCCTGGCACCCTCCTGATCCTCCTGGCTGCCTCACAAGGCCAGACCCAGACCTGCCCAG
Seq A exon
GCTCACACTCGCTGAGGTACTTCTACACCGCCTTGTCCCGACCTGCAATCAGCGAACCGTGGTACATAGCTGTGGGCTACCTGGATGACACTCAGTTCGTGCGCTTCAACAG
Seq C2 exon
CTCAGGGGAGACTGCGACATATAAGCTAAGTGCGCCATGGGTGGAGCAAGAGGGGCCCGAGTATTGGGCGAGAGAGACAGAGATCGTCACAAGCAATGCACAGTTTTTCCGCGAGAATCTGCAGACTATGCTGGACTACTACAACCTGAGTCAAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000054128-0-2,0-1,0-0-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.062 A=NA C2=0.004
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(0.1=0.0)
A:
NA
C2:
PF0012913=MHC_I=PU(95.7=98.9)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCAAGTTACAAAGTCCAGGACT
R:
GTCTGCAGATTCTCGCGGAAA
Band lengths:
253-365
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