MmuINT0120811 @ mm10
Intron Retention
Gene
ENSMUSG00000057672 | Pkn1
Description
protein kinase N1 [Source:MGI Symbol;Acc:MGI:108022]
Coordinates
chr8:83681180-83683593:-
Coord C1 exon
chr8:83683399-83683593
Coord A exon
chr8:83681290-83683398
Coord C2 exon
chr8:83681180-83681289
Length
2109 bp
Sequences
Splice sites
5' ss Seq
CCAGTGAGT
5' ss Score
8.28
3' ss Seq
CCGCCCTCTCCTGGTTTCAGCTG
3' ss Score
8.59
Exon sequences
Seq C1 exon
GGACCCTGGAAGTACGAGTGGTGGGCTGCAAAAACCTTCCCGAGACCATCCCCTGGAGCCCTCCCCCCTCAGTGGGGGCATCTGGGACCCCCGAAAGCCGCACTCCGTTCCTGAGTCGCCCCGCTCGGGGCCTTTACAGCCGGAGTGGAAGCCTTAGTGGACGGAGCAGCCTCAGAGGGGAGGCAGAGAATGCCA
Seq A exon
GTGAGTGGTCATGGGGAGGCTGGGTGGTGGGTGGGTGGGGTGGTCGATTTGTAGCATTTTCTTTATTGATTTGACTATTTGCTTATTTATTTAAAGCCAGGGTTCACTCTGTTGCTTAGGCTGCCCTCAAACTCTGAGCTCAAGTGATTCATGGTTAGACAACTGAGTCAGCTGGTCCCATAGCTGCCATGGCTTCTATTCTATCTACACAGTGTCCGGGCCCTAGCGAGAGGACTCAGAGGTTAGGAGTGTGCACTGAGCTTGCAGAGGACCCCAGCCCTCATCAGGGGCCTTTAACTGCTGTCACCACAGTCAGTGGCTCCCATGCTCTTCTGACTTCCCTGCTCCCTACACCATGTGCACAACCTTCCGCACGCACACACGCACTCACACACACACACACACTTCAAAAATAAAAATTTGGGGCCAGAGAGATGGCTCAGCAGTTGAGAGCACTTGCTACTCTTGAAGAGCACCTGAGGTTCAGTCCCCAGCACCCACACAGCTGCTCACAACCACCCATAACTCCAGTTCTAGGGAGTCTGACACCCTCTTGTGACCTCTTCAGGTACCAGGTACACAAGTAGTGCAAATACATGCATGTAGAACACACATACACATAAAAGTAAAAGCAAATAGAAATAAAACAGTAACAAGAGAAACAGAACAAAACAAAATAACCCATAAATGTAAGAGAAGATGTAGAGAAATTGGAGCCTGTGTTGGCAGTGGGCAAAGTCAAACAGTCATCATGAGGAATAGAGCAGAGGCTTGGGGCACAGATCAGCAGTAGAGCTGCCTAGAACCCCCCAGTGAGAGCTGGAGTATGGCTGTGGTAGGCCTCCTGCATAGAACCCCCCCAACCCCCCAGTGGGATGGACGGGACTCAGTGAGAGAGCACCTGCCTAGAACCCCCAGTGAGGGCTGGAGTCACTGATTAGGGATAGACTACTTGCCTACTATATTTGAGGTCCTTCCATCCTAAGCCCAGCAAAAATAAAGGTGAAATTAGCGATAATCACGTGATCTAGCAGTTCAGCTTCTATATGTCCATCAGAGAACTGAGCAGGGGTTTGAGTTGGTAGATGCCCAATTTGTGGCATTATTCACAATGGCAGCAAGGGAGAAGCCGTGCCATGAGTGGACAGGTGCACGGTGTTCTGAACAGAGTGGGCTAGGATTCAGTCTTGGAAGTGAGGAGAGCATGAACCGTCCCTACGTACACAGACAGACACTGAAGGTGGTGCAGGAAGCAAAAGAAGCCAAGGACAGCCTGGTTCCACTCAGCATTTGCTAGAGCCACAGACCCACGGAGACAGGAAATAGGAGGAGCAGCAGGTGCTAGAGGCTAGGGAAGGGTGTCCTCATCTTCTGGAACTAAGGCTCAGAAGCCATCTGAAGGGCAGGAGATGACTGGTAGTGACGGGCACAGTGGTGCATGTGCTGAGCTCCAAGGATCTGTACTTACACAAGCCCGGTGGGCTGGGGACAGAGGTGAGGGGAAGCTAGTCTAGCACGAGTATGCCCCTTAGTTTGATTCCCAGCACCAGATAAACCAAGTACAGGAGCACACACCTGTAATCCCAGCAGGCTTGGAAGTAGAGACAGGACAGTCAGAAGTTCATTATCATCCTAAAAACATAGAGTATCCAGGGCCAGCCTGAGTTACACAAGACTGTCTCAAAAACAAACAAGCCAAACGCATATCTGATGTAGTCCTACAAGCCTTCCAGAATTTAGGAGGTAGAAGCAGGCAGATCAAAAATTATGGGCCAGCCTAGGATACATGAAACATTGTCTCAAACAGAAGAAAAATGAGGGCTGACATGTGTATGCCTGGAACCCTAGTACTCAGGAGGCTAAGGCAGGAGGATTCAAAGCCAATCTGGGTTATGCAGTAAGTTCTAGGCTAGCTTGGTCTTTAGAGTAAGATTGTATCTCAAAACCAAAAGAAAAACACAAAAATGAGCAACCCCTTCCCCCCAAACCCCAGTCTGAATTAAAGGCTTTATTGTGAAAGGCAAGCTGGCTGAGGGAGTTGAGGGGCTCTGACAGGATATGGAGCAAGCCCTCCCCTCCCCCTTTCCTGCCGCCCTCTCCTGGTTTCAG
Seq C2 exon
CTGAGGTCAGCACCGTGCTCAAGCTGGACAACACAGTGGTGGGGCAAACAGCCTGGAAGCCATGCGGCCCCAATGCCTGGGACCAGAGCTTTACCCTGGAGCTGGAGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000057672:ENSMUST00000005616:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.515 A=NA C2=0.000
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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