MmuINT0108813 @ mm10
Intron Retention
Gene
ENSMUSG00000032525 | Nktr
Description
natural killer tumor recognition sequence [Source:MGI Symbol;Acc:MGI:97346]
Coordinates
chr9:121741598-121742787:+
Coord C1 exon
chr9:121741598-121741743
Coord A exon
chr9:121741744-121742564
Coord C2 exon
chr9:121742565-121742787
Length
821 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGA
5' ss Score
9.48
3' ss Seq
ATTTTTTAATATCTATTAAGTTT
3' ss Score
4.13
Exon sequences
Seq C1 exon
GGTTCATGTTGTTTTTGGACTGGTAATATCTGGTTTTGAAGTAATTGAACAGATTGAAAATCTGAAAACAGATGCTGCAAGCAGACCTTATGCAGATGTCCGAGTTATTGACTGTGGGGTGCTGGCCACAAAGTTGACAAAAGATG
Seq A exon
GTAAGAGCCTTTGGAGGATGGGGGGAGTCTGGAACAGAGAGGTGTAAAGCATGTGTGTGGGTAGTGGGAGTGTTGATGCCTCTGTGCTGTGCTGCATCCTCTCCACCAGCAGATGTTTCCAGCTCCTCCTCCTGCTACTACCCAGCTGTCAGCTGATAAGACCTCTCATGCCTGGATTATTGTAGTACCCTCACAGCTGCCTACCTTACCTCTCTCCCTGTTTCCCTATGGTCGTTTGTCAGCAGGCATGTCCTCACTAATTTCTTTGCTCATGCCCTTGGTTTACTTTGGTTTGTATTCAGCAGCTACCAGAGTGATCCTCTTAAGGGACAGGTAATCCACATCCCTCACCCCCCACTCCCCATCCCCACCCCGCACAGACACTACAGTGGTACTCTCAGCACAGAGCCGCAGCTTTCTGTTGTCTTTTCAACATTTTTCCATACTCATTGCCTTCCAGCTACACTGATGTTTATTCAGACACTAGGGACTTTGTGCCTGCCCTCATGTATACTTTAGGTCTCTGTTCCAGGGTAATCTTAAGCTACCTATATCTATATGTATCTCTCTGTTCCCTTGACATTTGTTTATTCTGTCTTAGCTCTCATTACTTGTCACGTTTGCTTAAAATACAGGCTTCATGATGGGTAAGGGCTTGGGCATTATACATAACTGGGGAACAGTTTAGTTGAGTCTATTTTTAGTTTGCTGTTCATGAAGCAATTATATGATAGTCAGCAGTCACAGTTTTTCACTCTGGATGGTGTGTACTGGGCTCAAGTACTGATTTTTTATTTATTTATTTTTTAATATCTATTAAG
Seq C2 exon
TTTTTGAGAAAAAAAGGAAGAAACCAACCTGTTCAGAAGGCTCGGACTCTTCTTCCCGTTCCTCTTCCTCTTCAGAGTCCTCCTCAGAGAGTGAAGTTGAGCGAGAGACAATCAGAAGGAGAAGACATAAGAGGAGGCCAAAAGTCAGACATGCTAAAAAGAGACGGAAAGAAATGAGCAGTTCAGAAGAACCGAGGAGGAAGCGCACAGTAAGCCCTGAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032525:ENSMUST00000035112:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.027 A=NA C2=0.967
Domain overlap (PFAM):
C1:
PF0016016=Pro_isomerase=PD(24.1=80.0),PF105004=SR-25=PU(20.1=54.0)
A:
NA
C2:
PF105004=SR-25=FE(55.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTTCATGTTGTTTTTGGACTGGT
R:
GCTTCCTCCTCGGTTCTTCTG
Band lengths:
350-1171
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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