MmuALTA1038056-4/6 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000056116 | H2-T22
Description
histocompatibility 2, T region locus 22 [Source:MGI Symbol;Acc:MGI:95956]
Coordinates
chr17:36041868-36042500:-
Coord C1 exon
chr17:36042342-36042500
Coord A exon
chr17:36042017-36042112
Coord C2 exon
chr17:36041868-36042016
Length
96 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
CCAGGTTCACACTCGCTTAGGTA
3' ss Score
3.49
Exon sequences
Seq C1 exon
GAAGTTGGGTTCTGAGATAATACAATCGCTGTCGCTCTAGTTTATAAAGCTGTCCAAGATCTGCCCAGTCCCAGATGTCCTGGGTCCTCAGGGCCGCTGTGGTCTGCGCCCTTCTCCTGCAGCTGGATGCCAGACCATCCTGGACTCGGATCCCTTTGG
Seq A exon
GTATTTCTACACCGCTGTGTCCCGGCCTGGCCTTGGGGAGCCCTGGTTCATAATCGTCGGCTATGTGGACGACATGCAGGTCCTGCGCTTCAGCAG
Seq C2 exon
CAAGGAGGAGACTCCGAGGATGGCACCCTGGCTGGAGCAGGAGGAAGCAGATAACTGGGAGCAGCAGACTCGTATAGTCACAATTCAAGGACAGCTGTCTGAAAGGAATCTGATGACCCTGGTTCATTTTTACAACAAGAGCATGGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000056116-1-10,1-9,1-8,1-7,1-6,1-5-4/6
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.087
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(0.1=0.0)
A:
NA
C2:
NO
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:
AGATCTGCCCAGTCCCAGATG
R:
CTGCTGCTCCCAGTTATCTGC
Band lengths:
170-266
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