MmuALTD0009397-3/4 @ mm10
Alternative 5'ss
Gene
ENSMUSG00000032525 | Nktr
Description
natural killer tumor recognition sequence [Source:MGI Symbol;Acc:MGI:97346]
Coordinates
chr9:121742640-121744144:+
Coord C1 exon
chr9:121742640-121742773
Coord A exon
chr9:121742774-121742857
Coord C2 exon
chr9:121743989-121744144
Length
84 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
GGTGACTTGATTTATTTTAGTTA
3' ss Score
4.77
Exon sequences
Seq C1 exon
AGTCCTCCTCAGAGAGTGAAGTTGAGCGAGAGACAATCAGAAGGAGAAGACATAAGAGGAGGCCAAAAGTCAGACATGCTAAAAAGAGACGGAAAGAAATGAGCAGTTCAGAAGAACCGAGGAGGAAGCGCACA
Seq A exon
GTAAGCCCTGAAGGGTAAGAGCACCCAGCCTGCAGCCCGGGCACAGACTCCAGTGAGCTCCATGCTCGTACTATACTCGTAGAG
Seq C2 exon
TTATTCTGAGAGGAGTGATGTGAATGAAAAAAGATCAGTTGACTCAAACACTAAAAGAGAAAAGCCTGTTGTCCGCCCAGAAGAGATTCCTCCAGTTCCCGAGAACCGATTTTTACTTAGAAGAGATATGCCTGCTATCACTGTGGAGCCTGAACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032525-33-28,34-28,35-28,36-28-3/4
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=0.976 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF105004=SR-25=FE(55.2=100)
A:
NA
C2:
PF105004=SR-25=PD(23.9=60.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGAAGAACCGAGGAGGAAGC
R:
TCAGGCTCCACAGTGATAGCA
Band lengths:
179-263
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