MmuINT0108803 @ mm10
Intron Retention
Gene
ENSMUSG00000032525 | Nktr
Description
natural killer tumor recognition sequence [Source:MGI Symbol;Acc:MGI:97346]
Coordinates
chr9:121748031-121751762:+
Coord C1 exon
chr9:121748031-121750886
Coord A exon
chr9:121750887-121751666
Coord C2 exon
chr9:121751667-121751762
Length
780 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGA
5' ss Score
10.1
3' ss Seq
TCTCACTCACTCCATTGTAGATC
3' ss Score
8.58
Exon sequences
Seq C1 exon
GCTGAGTGACCCCTGTTCAAGCCGATGGGATGAAAGAAGCCTGTCCCAGAGATCCAGATCATGGTCCTATAATGGATACTATTCAGATCTTAGTACAGCGAGACACTCTGATGGTCACCATAAGAAACACAGAAAGGAAAAGAAGTTTAAGCATAAAAAAAAAGCTAAAAAGCAGAAACATTGCAGAAGACACAGACAGACAAAAAAGAGGAGAATAGTTATGCCTGATTTGGAACCCTCAAGATCTCCCACCCACCGAATGAAGTCCTCTTGTGTTAGAGAAAGGAGATCTCGTGCCTCCTCCTCCTCCTCTCATCACTCATCCAAGCGCGACTGGTCTAAATCAGACCAGGATGACGGGAGTGCTTCAACCCATTCCAGCAGAGACTCCTACAGATCCAAGTCTCATTCACGATCAGATTCTAGAGGGAGCTCTAGATCAAGGGCTGTGTCAAAGTCCTCATCTCGTTCTCTCAACAGATCAAAATCTAGATCTAGTTCCAGGTCAGGACCCCGAAGAACATCAATATCCCCCAAAAAACCTGCTCAGCTGAGTGAAAATAAGCCAGTTAAGACAGAACCTTTAAGGCCGTCAGTGCCACAGAATGGAAATGTGCTAGTGCAACCAGTGGCAGCAGAAAACATTCCTGTAATACCATTGAGTGACAGCCCTCCCCCTTCTAGGTGGAAGCCTGGGCAGAAGCCCTGGAAGCCCTCTTACGAGCGAATTCAGGAGATGAAAGCTAAAACAACCCACTTGCTGCCTGTCCAAAGCACATACAGCTTAACAAATATTAAAGCAACCGTGAGTTCATCATCTTATCACAAAAGAGAAAAACCTTCAGAAAGTGATGGGAGTGCTTATTCAAAGTACAGTGATAGAAGTTCTGGAAGCTCAGGAAGGTCGGGGAGCAAGTCTTCTAGGAGCAGGTCATCCTCCAGGTCCTACACAAGGTCAAGGTCAAGAAGTCTCCCTACTTCACGCTCACTCTCTAGGTCTCCATCATCTAGGTCTCACTCACCAAATAAGTACAGTGATGGTTCCCAGCACAGTAGGTCATCTTCATATACTTCTGTTAGCAGTGATGATGGAAGACGAGCCATGTTTAGATCCAACAGGAAAAAAAGTGTCACTTCACATAAAAGACATCGCAGCAACTCTGAAAAGACACTTCACAGTAAATATGTCAGAGGCAGAGAGAAATCCTCACGTCACAGAAAGTATAGTGAAAGTAGATCATCTTTAGATTACTCTTCAGACAGTGACCAGTCACATGTTCAAGTATACTCAGCCCCAGAGAAGGAGAAGCAGGGAAAAGTGGAAGCATTGAATGATAAGCAGGGGAAAGGCAGAGAAGAAGGAAAACCCAAGCCTGAATGGGAATGTCCTCGTTCTAAAAAGAGAACTCCGAAAGATCACTCTAGAGATGACAGTGTGTCCAAAGGGAAGAATTGTGCGGGGAGTAAATGGGATTCGGAATCAAACTCAGAACAAGATGTGACTAAGAGCAGGAAAAGTGATCCCCGGAGAGGTTCAGAAAAGGAGGAGGGTGAAGCCTCTTCAGACTCCGAGTCAGAAGTTGGTCAGAGTCACATCAAAGCCAAACCCCCAGCAAAGCCTCCAACAAGCACTTTTCTGCCCGGCAGCGACGGTGCCTGGAAGTCTAGGAGACCACAGTCTTCAGCCTCTGAGTCAGAGAGCTCCTGCTCCAACTTGGGGAACATTAGAGGAGAGCCCCAGAAGCAAAAACACTCAAAGGATGATCTTAAGGGGGATCACACAAAAAGGGCAAGAGAGAAGTCAAAAGCTAAAAAAGACAAAAAACACAAGGCTCCAAAACGGAAGCAAGCTTTCCACTGGCAACCTCCACTCGAGTTTGGTGACGATGAGGAGGAGGAGATGAATGGGAAGCAAGTTACACAGGACCCAAAAGAGAAAAGGCATGTCTCTGAGAAGTGTGAAGCTGTGAAAGACGGCATTCCAAACGTCGAGAAAACCTGTGATGAAGGCAGTTCTCCAAGTAAACCCAAGAAGGGTACTTTAGAGCAGGACCCACTTGCAGAGGGTGGACATGATCCCAGCTCTTGTCCTGCACCTCTGAAAGTGGAGGACAACACGGCCAGCTCTCCACCTAGCGCCCAGCACCTTGAAGAGCATGGCCCAGGTGGAGGGGAGGACGTGCTTCAGACAGATGACAACATGGAGATTTGCACGCCTGATAGGACTTCCCCTGCAAAGGGAGAGGTGGTGTCCCCTTTAGCAAACCACAGGCTAGACAGCCCAGAGGTGAACATTATTCCAGAGCAGGATGAGTGTATGGCACATCCTAGAGCAGGAGGAGAACAAGAGAGTAGCATGTCTGAAAGCAAGACCTTGGGTGAAAGTGGGGTTAAACAGGACAGCTCTACCAGTGTGACCAGTCCTGTAGAAACTTCTGGAAAGAAGGAGGGGGCTGAGAAGAGCCAAATGAACCTCACAGATAAGTGGAAGCCATTGCAAGGTGTAGGGAATCTGTCAGTGTCTACTGCAACCACATCCAGTGCTCTGGATGTGAAGGCATTATCTACTGTGCCTGAAGTGAAACCACAAGGCTTGAGGATAGAAATCAAAAGCAAAAATAAGGTTCGGCCTGGGTCTCTCTTTGATGAAGTAAGAAAGACGGCACGCCTAAATCGAAGGCCACGGAATCAAGAGAGTTCCAGTGATGATCAGACACCTAGTCGGGATGGTGATAGCCAGTCCAGGAGTCCACACAGATCTCGAAGCAAATCCGAAACCAAATCTCGACACAGAACAAGGTCTGTCTCATACAGTCACTCACGAAGTCGATCTAGAAGCTCTACGTCATCTTACCG
Seq A exon
GTAAGAAATAATCCCTTTGTTTTGTTTTGTTTACCCCTAAGGAGAGTCTGCTGTCAGCTCAGAAAAACATTAGCATTAGAAGTGTGATCACTGTTTCCAGATATCTGACAAGAGAATAAGAAGCGTTCCACATGACCAAAACCACTGATAGAGGACATAAGTAGGGAGAGGGCATTTCAGGACAGGAAAAGGACTCAGCTGAAGAGACCTGTAGTTTTATCACTTGGGCAATGAAACCTCTTGCCATGACTGGTGGTGAGTTCTTTATATTCAAAGATGTGAAGTACCTGGCCTTCTTGTGCAGGTTGCCATGCCTTTGGATAGAATCCTTTGAGCAGATTCTGTAGAATTCTTACAGATTATTGAACTTACTACTCTGTTACACCTGTAAAAGGTAGATGCCATGCATGGAGGCAGAGTTGCTAAGTCGACCTTGGTGATCATGGTGGAATTTTTGTTGGAGACCTATCCAGCATTTGTCATCTTGAAGAGTTCAAAGACTGAGAGTGAAAGCTAAGAAAAGGTATTCACAGTAACAGGAAGCCAAATAAGTAGTTGTGTTCACGAACATGTACATAGGCCTGTTGCAGTCTTTTGTGACTTTATTTTATTGGTTAAACCATGGTGCCTTCTGGATTGCTTCTTTTGCAATCCATGACAGTGTCCAGTGAGCAGAGTTTGTAAGAGACCTTTTCCTGCTTGTGTTCCCCTCCTGCTCTGTTCATCCCAACAGTGTGGGGAGTGCACATAGTATATGCTTTCTCACTCACTCCATTGTAG
Seq C2 exon
ATCAAGAAGCTACTCTAGAAGCCGGAGCAGGGACTGGTATAGCAGAGGCCGAACCCGCAGCCGGAGCAGTTCCTATGGAAGTTTCCATAGTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032525:ENSMUST00000035112:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.983 A=NA C2=0.776
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CAGTGCTCTGGATGTGAAGGC
R:
GCTCCGGCTTCTAGAGTAGCT
Band lengths:
346-1126
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