MmuINT0120827 @ mm10
Intron Retention
Gene
ENSMUSG00000004591 | Pkn2
Description
protein kinase N2 [Source:MGI Symbol;Acc:MGI:109211]
Coordinates
chr3:142790902-142794183:-
Coord C1 exon
chr3:142794103-142794183
Coord A exon
chr3:142794015-142794102
Coord C2 exon
chr3:142790902-142794014
Length
88 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGT
5' ss Score
10.75
3' ss Seq
ATTTATATTTTGTGATCTAGCTA
3' ss Score
6.13
Exon sequences
Seq C1 exon
CTGCTAAGGAGAAATCCTGAGCGGCGCCTGGGAGCTGGTGAGAAGGATGCAGAGGATGTCAAGAAGCACCCGTTTTTCCGG
Seq A exon
GTAAGTGTAAAAGCTCAGAGTTCTTTTATGAAACTTGAGTGACTGGGAACACAAAACTAAACCGGCTGATTTATATTTTGTGATCTAG
Seq C2 exon
CTAACCGACTGGAGTGCTCTAATGGACAAAAAAGTAAAGCCACCATTTGTACCTACCATTAGAGGACGGGAAGATGTTAGTAACTTTGATGATGAATTTACCTCAGAAGCACCTATTCTGACTCCACCTCGAGAACCAAGGATACTCTTGGAAGAGGAGCAGGAGATGTTCCACGATTTTGACTACGTTGCTGATTGGTGTTAAGTTTCTAGACCCTGAGACCAAGCAGACTGACCAACAAGAAGACCTCTTGAAAACAGCAGCCCTGCATTTCCTTTCCGTGCCACCAGGAGCTTCTGAGATTATATAAAGCACATGAAGATGTGGTTACAGTACTGTTTTATACCTTAATGTTTTCAACGTAAATCTGAACACTGGAAGCAGTTTCATGGAGTTTAGGCTGAGTGAACATTGGCCATGGAAATCCATTACAAATAAATACTTTTACATCAATACTCTTATTTTTAAAAAGAAGAAGAACCACTTTTTTATAGTCCCCATGTTTGCCCTAGGCCTGCCTTAAGTGGAAGGAAGATTAATCACTTAACTATATTTTACAAAAGAAAAAATAGGGCTTTGGATGCTATTACTCGTAATATAAAAAGTGTGATTCTATTTCACTAAGGCAATTATTTTTTTAAGAAATCACTATAATATGAAAAAATGTGGCAGTTTGTACACCTTTGGTGGCTTGATTTAAAGAAAAGAATGAGAATGTATTGATGTCTATTTGATGAATTTTCTATATTTATCAGGAGAACACTTTATTGCCTTAAGTTTACCAACCATGTAGCAGAGCCTCCTAGCTTTCCAGCAGAGCTACCTGCCAAATGAGTTTGTGTATTAAACAATGCTGCAAAAAGATAGGGACATCAGCATTCACTTAACAGTAACAATGAGGACTTCTAAGCAGCTGGAACCAAGATACCATGCTAACTCTATGCATTCCCAAAGTCAAGGCACCGTGGAGGATGTTCAGTCAGGTCTTCCAAAGTCAGTGAACCTGATTAACCCTTTATTGATATGCATTCTACACGTATTTCAACCTAGACATCTTGTTCTTGTGTCTGCTGTAGAAGGAAACTCTATCTTTGTTAAACCATAGAGATTATCATGGTATACATGCTGTGAACATGTATATGTACAAGTTGTAATGTATTCTGTGTTGTAGGCATATTATTTAATTTCACCACGTCATCACTTTTGTACAGTGGCCAAGCAGACACCTCCAACTCCAGCATTTCCATTAAGTGCATTTGTACATTTTAGGCCGCTGGATCCAGATTTTATATTGGCAGTTACTGAGGGCTAAAGCAATATATTGTAACAGAATGTATAAATATTTTTGATAAAACAGTCTATATTTTATAAAAAGTTATTATAACACTAAAGCTGTACCTCAAAAGTCTCACAAATAATTTGATCAAATGCTCTACGCATCCTCAGAGGATCCGTTCCTGGCTTTGTATCGCTCTTACCATATGCCTGTTTGCAAATCATGATCTTCACTGGGCTGGAATTTTATTAGATTTTTGTTTTGTTTTTCCCTTTTTTCTCCTAGGCTGTCACTCTGTTGTTCTCCCTCAGTTCAGTAATATCAATAACTCTTTGCTTAGCATGTTAGGGCCATGATACCTCAGGAACAGCAGAATGGTAACAACCACACTCGAATTAACCATGTAATCACAGTGAGCTCATCTCTTACAATTTTCCAAATCTGCGTTATTGAGAAGCAGGAAAGTACACAAATAATGAAGAGTTGAGCTTGAAACAGCTTTGCTGACATACATTGGCCTGTTGTTATTGTACTCTGAGAATGATTACAATTGTCCAGAGATTCTTTATATTACCTTCCAAATTCATTATTATTTTTCACTTAAGATCCTTTGGAAGAAAATTTTCTAAAAAGAGAAGCAATATGTTGCTGTAAATTGCTTTAAAATGCCAGTTAGTTGCCTTGGAAGAGAACAATAGAAAAAAAAAAAATAGCGTAATTGTCTAGCTTTAATTGACCAGTGTTAACTCAGTCTGAAAATAAAACACTAACTACTTTTGAGGTACAGTCTGCATACCTTTGTTGGTTCTGAAATATGCATAGAAAGCAACTTTTCAAATGGGCTTTTAGCATTAAAAACTGACATAGAGTTATATACACAGTGTACAAAAATTTTTTTAATTGAAGTCAATCATTAAAAAATTTAGAGGTCAGGGCATAGTCACACAATTATGCTGAAAAAAAAAGCACTCATTTTTCTGTAGTTTAAATATATATATATATTTTAGCCAGATTTTAAATTTTCAGAGTGTAAATAGATTTTGCTATTACTGTATGTGTATTGACTGCTCAAGCACTTTGTAAGGAAAGTGGATACTTTAGAATGGTACCCTATGCATCCAAATGAAATGTGCCTTTACATCATTCTAAGAAAAAGGGGGTTTTGCAGTCATAAATTACCACAAATGCACAAATTAAAGTTTAAAATAGATTGAAATTTGTAATTTTGGTTTTAAGTTTTCATTCCTTTTAGAATTGTCCTTGTGTTAAAATAGTTGGCTAAAAACGTTAGCTCTACTTGGAGGTCTCAAGAAAATTATTTTTAGTTAGCTTTCTTTTCATCCTGGAGAAGGCACATTGTCCACTTTACTTGGAATAATGGGGAGATTTCATCTAGGTCTGTATTCTACAGCTTCTTTCATCCATGCACAGAATGGCCACTGTCACTAGACACCAAGACCAGGAAAGTTGCCAGGAGGAGAGAAGCAATGATGTTTCCAAGACTAAAAAGCAAATATGCTAATGTAAAGTGTAACATGGGAGCTTCCTCGTGTTAGAGCAGTGGCTCTCATCCTAGGGGGTATGAGAGGGGTTAGAATGGCCACTTCATAGGAGCTGCATATCAGATGCTTATATTGCAATTTATAATAGTAGCAAAATTACAGATATGAAGTAGCAACAAGATACCGTTAAGGTTAAGGGTCACCACAACATGAGGAACTGTATTAAAGGGCCGAAACATTAGGAACTTTGAGAACCACTGTGTTAGAGGGTAACATTTTAGTATTGGATCTAACATTTGAGAAAATTGTCTAATTAATAAAGCAGAATGCTAGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004591:ENSMUST00000043812:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.185 A=NA C2=0.164
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PD(9.6=92.6)
A:
NA
C2:
PF0043319=Pkinase_C=WD(100=70.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGATGTCAAGAAGCACCCG
R:
GGTTCTCGAGGTGGAGTCAGA
Band lengths:
167-255
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