MmuALTA0008345-1/3 @ mm9
Alternative 3'ss
Gene
ENSMUSG00000073406 | H2-Bl
Description
histocompatibility 2, blastocyst [Source:MGI Symbol;Acc:MGI:892004]
Coordinates
chr17:36220641-36221138:-
Coord C1 exon
chr17:36221105-36221138
Coord A exon
NA
Coord C2 exon
chr17:36220641-36220877
Length
0 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
GCGATATTTCGAGACCGCAGTGT
3' ss Score
-3.72
Exon sequences
Seq C1 exon
GCGGCCGCCCTGACTATGATCGAGACTCGCGCGG
Seq A exon
NA
Seq C2 exon
TGTTCCGGCCCGGCCTCGGGGAGCCCCGGTTCATCTCTGTCGGCTACGTGGACAACACGCAGTTCGTGAGCTTCGACAGCGATGCGGAGAATCCGAGATCTGAGCCGCGGGCGCCGTGGATGGAACAGGAGGGACCGGAGTATTGGGAGCGGGAAACACAGATCGCCAAGGACAATGAGCAGAGTTTCGGATGGAGCCTGAGGAACCTGATCCACTACTACAACCAGAGCAAGGGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000073406-0-2,0-1,0-0-1/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.209
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(5.6=45.5),PF0110318=Bac_surface_Ag=PU(3.8=27.3)
A:
NA
C2:
PF0012913=MHC_I=FE(44.4=100),PF0110318=Bac_surface_Ag=FE(50.6=100)
Other Skipping Isoforms:
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACTATGATCGAGACTCGCGC
R:
CTGTCGAAGCTCACGAACTGC
Band lengths:
102-109
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: