MmuALTA1004648-1/2 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000016206 | H2-M3
Description
histocompatibility 2, M region locus 3 [Source:MGI Symbol;Acc:MGI:95915]
Coordinates
chr17:37270998-37272544:+
Coord C1 exon
chr17:37270998-37271273
Coord A exon
NA
Coord C2 exon
chr17:37272376-37272544
Length
0 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
ACATCACCCTGACCTGGCAGAAG
3' ss Score
5.06
Exon sequences
Seq C1 exon
GCTCTCACATCCTGCAGTGGATGGTTTCCTGTGAGGTAGGGCCAGACATGCGCCTTCTTGGAGCCCACTATCAGGCTGCGTATGATGGCTCAGATTACATCACCCTGAATGAAGACCTGAGCTCCTGGACTGCAGTGGACATGGTGTCTCAGATCACGAAGAGCCGTTTAGAGTCAGCTGGCACAGCAGAGTACTTCAGGGCCTATGTGGAGGGAGAGTGCCTGGAGCTGCTCCACAGATTCCTGCGGAATGGCAAGGAGATTCTTCAGCGAGCAG
Seq A exon
NA
Seq C2 exon
AAGGATGAAGAGGACCTGACCCAGGACATGGAGCTTGTGGAAACGAGGCCTTCAGGGGATGGAACCTTCCAGAAGTGGGCAGCTGTGGTGGTGCCTTCTGGAGAGGAGCAGAGATACACATGTTATGTGCACCATGAGGGGCTAACCGAGCCCCTTGCCCTGAAATGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000016206-2-10,2-9-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence exclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.011 A=NA C2=0.194
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PD(49.2=94.6)
A:
NA
C2:
PF0765410=C1-set=WD(100=90.3)
Main Inclusion 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:
GAAGACCTGAGCTCCTGGACT
R:
CTGCCCACTTCTGGAAGGTTC
Band lengths:
248-355
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