MmuALTD0008714-1/4 @ mm10
Alternative 5'ss
Gene
ENSMUSG00000026471 | Mr1
Description
major histocompatibility complex, class I-related [Source:MGI Symbol;Acc:MGI:1195463]
Coordinates
chr1:155136575-155137774:-
Coord C1 exon
chr1:155137699-155137774
Coord A exon
NA
Coord C2 exon
chr1:155136575-155136850
Length
0 bp
Sequences
Splice sites
5' ss Seq
TGGGTATGT
5' ss Score
7.43
3' ss Seq
ATAGGCTGTATATGTTTCAGGGC
3' ss Score
6.9
Exon sequences
Seq C1 exon
GGACCCACTCGCTGAGATATTTTCGTCTAGCTGTTTCCGATCCTGGTCCCGTCGTCCCTGAATTTATCTCTGTTGG
Seq A exon
NA
Seq C2 exon
GGCTTCACACCTACCAGAGAATGATTGGCTGTGAGTTGCTAGAAGATGGCAGCACCACAGGGTTTCTCCAGTATGCATATGATGGACAAGATTTCATCATCTTCAATAAAGACACCCTCTCCTGGTTGGCCATGGATTATGTGGCTCACATCACCAAGCAAGCATGGGAGGCCAACCTGCATGAGTTGCAATACCAAAAGAACTGGCTGGAAGAAGAATGCATTGCCTGGCTAAAGAGGTTCTTGGAATATGGAAGAGATACCCTAGAAAGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026471-3-2,4-2,5-2,6-2-1/4
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence exclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.023 A=NA C2=0.009
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(78.1=96.2)
A:
NA
C2:
PF0012913=MHC_I=PD(50.0=94.6)
Other Inclusion 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:
GGACCCACTCGCTGAGATATT
R:
CTCCCATGCTTGCTTGGTGAT
Band lengths:
246-351
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