MmuALTD0002427-3/3 @ mm9
Alternative 5'ss
Gene
ENSMUSG00000091705 | CR974466.3
Description
histocompatibility 2, Q region locus 2 [Source:MGI Symbol;Acc:MGI:95931]
Coordinates
chr17:35480103-35481975:+
Coord C1 exon
chr17:35480103-35480219
Coord A exon
chr17:35480220-35480559
Coord C2 exon
chr17:35481700-35481975
Length
340 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACA
5' ss Score
8.1
3' ss Seq
TTCTTAAATCTTCCACACAGATC
3' ss Score
8.54
Exon sequences
Seq C1 exon
ACGGAAGCCTACTCCGAGGGTATGAGCAGTCTGCCTACGATGGCCGCGATTACCTCGCCCTGAATGAGGATCTGATAACGTGGACAGCGGCGGACCTGGCAGCACTGAAGACCCGAA
Seq A exon
GCAAGTTGGAGCAGGCTGGTCTTGCAGAGAAGCGCAGGGCCTACCTGGAGGTCGATTGCTTGACGTGGCTCCGCAGATACCTGGAGCTCGGGAAGGAGACGCTGCTGCACACAGGTGCAGGGGCCCTCGGGCAGCTCCTCCCTCTGCCCTCGGGCTGGGGCTCAGTCCTGGGGAAGAAGAAACCCTCAGCTGGGGTGATGCCCCTGTCTCAGAGGGGAGAGAGTGACCCTGGGTCTCCTGATCCCTCATCACAGTGACTGCACTGACTCTCCCAGGGCTCAGCCTTCTCCCTGGACAGTGCCCAGGCTGTCTCAGGAGGGAAGGAGAGAATTTCCCTGAG
Seq C2 exon
ATCCCCCAAAGGCGCATGTGACCCATCACCCCAGTTCTCAAGGTGATGTCACCCTGAGGTGCTGGGCCCTGGGCTTCTACCCTGCTGACATCACCCTGACCTGGCAGTTGAATGGGGAGGACCTGACCCAGGACATGGAGCTTGTGGAGACCAGGCCTTCAGGGGATGGAACCTTCCAGAAGTGGGCATCTGTGATGGTGCCTTTTGGGGAGGAGCCTAGATACACATGCCATGTGGAACATGAGGGGCTGCCTGAGCCCCTCACCCTGAGATGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000091705-2-4,3-4,4-4-3/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.011 A=NA C2=0.258
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PD(49.2=94.6)
A:
NA
C2:
PF0765410=C1-set=WD(100=89.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
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:
GGAAGCCTACTCCGAGGGTAT
R:
TGTGTATCTAGGCTCCTCCCC
Band lengths:
342-682
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: