MmuINT0108808 @ mm10
Intron Retention
Gene
ENSMUSG00000032525 | Nktr
Description
natural killer tumor recognition sequence [Source:MGI Symbol;Acc:MGI:97346]
Coordinates
chr9:121727316-121728685:+
Coord C1 exon
chr9:121727316-121727390
Coord A exon
chr9:121727391-121728577
Coord C2 exon
chr9:121728578-121728685
Length
1187 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TTCTTTTTTTTTTCCCCCAGGGG
3' ss Score
12.42
Exon sequences
Seq C1 exon
TTGGTCGAATTATGTTTCAGCTCTTCTCAGACATATGTCCAAAAACATGCAAAAACTTCCTATGCCTGTGCTCAG
Seq A exon
GTGAGTGAGTTTTTAACTTGTTTTCAATAAGAATGACTGGCTACTTACAGATGTATCTGTTTTAAGGCAGGAGAATGAGAACCTTCATAAATATATAATGAATGCCAGCAAGATTTTGCTGACAGGACCCTGATATAACTGTCTCTTGTGAGGCTATGCCAGTGCCTGGCAAATAACAGAAGTGGATGCTCACAGTCATTTATTTATTGGATGGAACACAGGGCCCCCAATGGAGGAGCTAGAGAAAGCACCCAAGGAGCTGAAGGGGTCTGCAACTCTATAGGAGGAACAACAATATGAACTAACCAGTACCCCGGAGCTCTTGACTCTAGCTGCATATGTAGCAGAATATTAGGCCATCTTCGGGAAGAGAGGCCCTTGGTCTTGCGAAGATTATATGCCCCAGTACAGGGGAATGCCAGGGCCAGGAGGCAGGAGTTTGTGGGTTGGGGAGCAAGGTGGAGGGAGGGTGTAGGGGACTTTCGAGATAGCATTTGAAATGTAAATGAAGAAAATATCTAATAAAAAGAAAACATTAAAAGAATACATACAATGATCTGTTAAGTGAGTTATATAGCTAAAACTTGAATATGATATGAAATATGAATGAAGGAAACATTTCTTAAAAGAGGACAGTATGAAAAAGAAATAATCTTTAAAATGATAAGGATCTATTTTATATAATAAAATCTTTATGTATTAATTCGTCAAATAAGACATTTCAAAATTAATTTGGCCCGGGAAAATGTTGTTATCCAAATTTTAATTCTTTAAATACATTTAGCACTTTTTAAAAATTGCTTTTCATTATGTATCATTGCTTACTCCCTTGCCAAGAAGAATAAAACGGGTTTAATGCTAAACATTTAAAATAGCAAGTTTAATTTTTAAAAACCTATGTTTGAACCAATTTTCTTGTTTTCATTCTTTAGTGAAATAATTCTCTTCATTCTTACCTCCAGTAGCACATAGAATTGTTTCTGGATCAATTTAAAACATACACTGCTTTGCATAATTTATTTTGGTGTGTGTATTATGTATATATGCTACATACATTGTGTCATCTGTCTGTGTCTTACATCTCTCATAGTATCAGCACATGGGAGGGATTTCACCGCAAATTAGTTGGTTGGTTATTCCCGGGGAGTGCTGGGTTTGTAGCTAAACTTCTTTTTTTTTTCCCCCAG
Seq C2 exon
GGGAGAAAGGCCTTGGGAAAACAACTGGGAAGAAGTTATGTTATAAAGGTTCTACATTCCACCGTGTGGTTAAAAACTTTATGATTCAGGGTGGGGACTTCAGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032525:ENSMUST00000035112:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0016016=Pro_isomerase=FE(55.6=100),PF0016016=Pro_isomerase=PU(1.8=3.8)
A:
NA
C2:
PF0016016=Pro_isomerase=FE(37.9=100),PF132061=VSG_B=FE(59.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGTCGAATTATGTTTCAGCTCT
R:
CTTCACTGAAGTCCCCACCCT
Band lengths:
182-1369
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