MmuINT0120806 @ mm10
Intron Retention
Gene
ENSMUSG00000057672 | Pkn1
Description
protein kinase N1 [Source:MGI Symbol;Acc:MGI:108022]
Coordinates
chr8:83666536-83670819:-
Coord C1 exon
chr8:83670739-83670819
Coord A exon
chr8:83670369-83670738
Coord C2 exon
chr8:83666536-83670368
Length
370 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGC
5' ss Score
8.19
3' ss Seq
CTCTGTCCCCCTCTCCACAGTCT
3' ss Score
11.37
Exon sequences
Seq C1 exon
CTACTGCGGAGGAACCCGGAGCGGAGGCTGGGGTCCACTGAGCGCGATGCAGAAGATGTGAAAAAACAGCCTTTCTTCCGG
Seq A exon
GTGAGCGGACCCCTCCCCATCCTCTCAGTCACCCCAAGGACCTGAGTATTCTTCTCAGTTCCAGTTCATTCCCACCCCAAATCTAGTAGCTGTATCTTAAAGAGCTTTGTAGCCCCACACCTCACAGCCACCATGATTCTTCACAAATGTTACCTCCGTTTGTCTGCAACCTTCATTTCCCTTAATTGTCATCCCCACTGCTTCTCCAGGCCCAAATCATCATCACAGGGCTTACCCTGGACTACCTCAGGCTCCCTAGATTTATCTGAGTTCCCAGTCCCTCCCCATCTTATCTGCTTCCTGCTGATCTCTAGACTTCCCTTCAGACCCTCAAAGTCCATCATGACTCACTCTGTCCCCCTCTCCACAG
Seq C2 exon
TCTCTGGGCTGGGATGTCCTGCTGGCCCGCCGCTTGCCTCCACCCTTCGTGCCTACACTTTCAGGGCGCACAGATGTCAGCAACTTCGATGAGGAGTTCACTGGGGAGGCCCCCACACTGAGTCCTCCCCGGGATGCACGGCCCCTCACAGCTGCGGAGCAGGCAGCCTTCCGGGATTTCGACTTTGTGGCCGGAGGCTACTAGCCCCAAGCCCCTGCCTTACCCAAGAGTTCTTGATTTTTTAAAAAACAAGCCTTTGGGGTTTACTCCATACATGCATTTTCAGCCTCTGTGTGCATCTGGACTGGAGTGTGCTTGGAGCAGGTGACAGAGGCAAGGCAGACTCTTGGGGGCAGGACTGATGGGGCACATTTGAAAGGTCAAGATGGGAACATGCAGTAGTGGGCTTAGGGGTATGTTGGAGAGCATTGGGGTTTTAAGGCCGTGTGGGTAGAAGGTGTTGAGATTCTTGGGATAGTTTGGGATAGACGCTTGCAAGAGTCTATTGGGGTGGTGACAGAGATGGGAAGTGAATCCAAAACTTTGCTCTATTTATGGAGAGCCCGAATCTTAGAACTAAGGTTGCGGCGCTGTGCGCATGCTCTTCAAGCTGTTGGCCTGGGGAGTCCCACCTCTGGTGTTTCGAGCATCCCATGTATCTGGGCCATCGCGTGACCATCGTTAGAACTGTACTCGTCCCCAGTGGAGCCTCTTTCACCCCTGTGCGGTGACAGTGTTGTGGACCCACAGGACGCAGCGCCCTAGGCACACTGAGTTTGAGACTCTATACCCTTGAGCCCAGCCCAGAATGGTTTGACTTAGCTTCTGGGCACATTCAGAGGTGACTGAAACCACTGTGCCGGGAACTACGCAGTGAACTGGCTTCCCAGGCACTCTTGGTTAGGCCCAGCTCCGTTGGACCACCCTTGGCACTGACCCTCAGGGGTAGGAGGCGAAGCAGTTGGCGCAGCATGGCCTGGCGCAGCAGGATGTACACCCATGGGTCCAGGATCTGGTTCCACGATGCGAGGCGTACAGCCAGAAAGAGTGGCCGCTGCAGGGAGTTAGAGTTCCAGCCCCCGATGGCCAACACCACCAACACCTGCGAGAGAAGCAGGTGTGAGCAGTGGAGCCCGCCGGAGAGAAGGGGTGGGGTGGAGGGTCAGGATGCCGGGGCGAGCCATGCAGGACAAATAGGATCTGTGCAGGAAGGAGAGTGACTAAGCAAAGGTCATCAGAGATTGCGGAGAGTCCGGCTAGAGAAGACCCAGTATTACAACACACATACGACTCTAAGGTCAACAAGCTGGGAAGGAAAAAGGCTATGAATGGATGGAGCGGAGGGATGTAGAAAGTGAAAGGCTTGAGTGTGTGAGACTATTTACAGAGATCCTAAAGAGAGTGAAGAAAAGGGTCCCGGATAGCAGAGGGGCAGGCTTTGTCTGCAGGCAGGGTCTTCAGGAGGCAGAGCCCAGGAGGGGGCAGAAAAGAGTTTGGCTTGAGGAGCGACTGCGCCCCTCACCAGCAGGGGGCTCCAGCAGATGCACGACACCACCATGATGCCCACGAGCTGGCCCACCATTTCCACATCGTGTGCGTGAACCCTGCGCGCGGAGCCGCCGCCCCGAGAGCTGCGGAGGGTGGCTGTGGCTGAAGTGATGGATGAGGCAGACGAGGCGGAGGCCAAGCGGGGTCCACGAGATCCCCAGCGCCGGCGATCATCGGGACCTGCGGTCTTTCGGAATCGTCGAGAGCGACGCCGTCTCCAGCGGGCACGGAGGAGCGCCAGGCCGCTGAGCGTATTGCACACTAATGCCGCAAGGAGCGCGGCCAGGCCAAGGCCGGCGAAGAGGCCGGCAAGCAACGCCTGGCGCCAACCTCCACGAGGCCCAAGGCTAATAAAACACCAGGTGCCAGGGTACTGTAACTCGTAGCGACCCACGTGTACCAGTGGCAGCAGCGCCACTGCCAAAGCCATGGCAGCCAGCACGGCTAGTGCCAGGCGTGCGCGGGCCACAGATACGCGCGCCGCGTGGATCAGTGGCTGCGTGACACCCACACAGCGCTCTACGGCCATGCCACAGCCAAGCAAAAGTGGGCACAGGCCGAAGAAGACCATGCAGCCACCCAGGAAATGACACGCCCCTCCAGCAGGCGCACGCCCCGCAGTATACAGGCGAAGCACCAGGGCGCCCGGGATCACATGGCCTGCTAGGTCGATGGCAAGCAGGCTGGCGACGAACAACAGGAAGGTGGCAGCCGAGCGGCGCCGCCGCATTCGGCCTGCAACCTGGGCCAGCAGCGCCAGCGCCAGCACGTTGGACACAGCACCCAGCGTCATGGAGAAGATAGGCAGCGCTGGTGATGTGCCATTATCGCCTGTTGGCAGCACCACAGATGTATTGGGGAGCCTGGGTGTTGCGCACGTTGCTGCCTCATCCGCTAGGCTCAGGTTAAGCCCGCAGGGGCTCATATCAGTGGCCAAGAGGGCTGCGTAGATAAGAAGAGGGCACAGTGAGGTAGGGTCCCAACCTTCTGTGCCCAGGGCACCGCCACATGACCCTAGCTGCTCCATTTCAGATCCTATTCACCTGTCACTGGCCCCATCTCGTGTCTGGCTTCATTCTGCCCTCGTATCTGCTGGGGGTCTTGACTGACCTGGCACGGGTCCCGGGTATCTAGTCTCATCTCCACCCCACCCCCACCTCCACGTTTCCACCCCATCAGTTTCCTGGTCCATGATCCCATGGGATAGACCCTTGCCCATTTCTGATCCCAATTTCCACTTTCGTGTCTGCCTGCCCATCTCTCCGTTTTCAGAAGTCTCCTTGGCTTGCCCTGGAACTGGCCAGGCTAACCTTAAATTCAAAAGATCCACCTGCCTATGCCTCCTGTGTCTTGGGATTAAAGGCTCACACCACAACTAGCTTTGGTCACCTTTTAACTCTGTCCTTGATGTCCCTGTTCCAACAACGCCACCACTTATAGTTCATCTCTTCCAATGGCCGTGTGCCTGTCTCCAGAGACTGATCCAATCTGCAGTTAGATCTCTTCCCCAAACAACCCATCTCTACACCTATAGACCCGTTCTTGTGCCCCAAGGCCTCTATGCCACATCTCTGGTCTCCGTGGTCCTCTCTGTCCCCACAGACCCCTGCTACCCCGAACCCATCTCTGAACTCTATGGTGCTCTCAGATCCCATGGGCCCAGCTCTTTTCCAGAATCCCATCTCTGTTGCCCTCTCTTGTCTCCATGGCAATCTCTCACCAGTCTGGCATTGCCTCATTCAGATGCCCATCCCATACCCCTATTTGAACCGCCCCCGGCTTGCCCATTCTCTAGTTGAGAGGAGATGGACAGCCTAGGACTGAGAGCCATTAAACAGCAAGAGAGCAGGAGGGCTATAGCTAGCCTTCTTTGGCTTGCTATCCTCAATGTCCCAGCTTCTTACCCAGTGCTGCTCAGGATGCAGGGTCCCCATGGCCTGGAACTTGGCTCCTGCTGCCTGCTCCAGCTACTCCCTGGCTCCCGGCAGGCCGCTCCCTCTTCCTGGGGCGGCTCCTCGGCTCCGTGCCGCCTCCACCCGCACTTCACTGGCCTCCAGGGGCTGCTCCACCCCATGCATGTCTGCTCTCTGGGGCTGGGAGCCTTGAGTGGGCAAAACTGCTGGCAACAGTCAGGGCAACTGGGCCCAGCTCCTTCCCGCCAAGGACTGAGGTTCTCTGAATTGGTTTGGTCTCTGTGACCCCCCTCCTCTCAGCGGGGCAGGAGCAAACCCCCACACCCTCACCCGGGCCTCTTGCCCGCCTCATTAATAAAGTGGATAAAATCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000057672:ENSMUST00000005616:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.333 A=NA C2=0.328
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PD(9.6=92.6)
A:
NA
C2:
PF0043319=Pkinase_C=WD(100=69.1)
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:
GCGCGATGCAGAAGATGTGAA
R:
CACTCCAGTCCAGATGCACAC
Band lengths:
352-722
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