MmuALTA1042050-2/3 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000073411 | H2-D1
Description
histocompatibility 2, D region locus 1 [Source:MGI Symbol;Acc:MGI:95896]
Coordinates
chr17:35262730-35263645:+
Coord C1 exon
chr17:35262730-35263186
Coord A exon
chr17:35263379-35263593
Coord C2 exon
chr17:35263594-35263645
Length
215 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
TCACCGCGCGCCGTCCCCAGGCC
3' ss Score
10.01
Exon sequences
Seq C1 exon
AAGAGAAGAAGGAAGAGGAAGGGTGGAGGTTAGGAAACAGTGAGTCGGGCTTGTGGGTCTCTCCTGGTGATCTGACAGCTTCTGGGTCAGAACTCGGAGTCACCACGACAAACTGCTCTCTGTCCGCAGTACAGGGTTCAGGCAAAGTCTTGGTTGCCAGGCGGTGAGGTCAGGGGTGGGGAAGCCCAGGGCTGGGGATTCCCCATCTCCTCAGTTTCACTTCTGCACCTAACCTGGGTCAGGTCCTTCTGCCGGGACACTGATGACGCGCTGGCAGGTCTCACTATCATTGGGTGGCGAGATTCCAGGAGCCAATCAGCGTCGCCGCGGACGCTGGTTATAAAGTCCACGCAACCCGCGGGACTCAGACACCCGGGATCCCAGATGGGGGCGATGGCTCCGCGCACGCTGCTCCTGCTGCTGGCGGCCGCCCTGGCCCCGACTCAGACCCGCGCGG
Seq A exon
GCCCACACTCGATGCGGTATTTCGAGACCGCCGTGTCCCGGCCCGGCCTCGAGGAGCCCCGGTACATCTCTGTCGGCTATGTGGACAACAAGGAGTTCGTGCGCTTCGACAGCGACGCGGAGAATCCGAGATATGAGCCGCGGGCGCCGTGGATGGAGCAGGAGGGGCCGGAGTATTGGGAGCGGGAAACACAGAAAGCCAAGGGCCAAGAGCAG
Seq C2 exon
TGGTTCCGAGTGAGCCTGAGGAACCTGCTCGGCTACTACAACCAGAGCGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000073411-3-4,3-2,3-1-2/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.264
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(0.1=0.0)
A:
NA
C2:
PF0012913=MHC_I=PU(50.3=98.9)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
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:
TCCCCATCTCCTCAGTTTCACT
R:
TAGTAGCCGAGCAGGTTCCTC
Band lengths:
296-511
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