HsaINT0126140 @ hg19
Intron Retention
Gene
ENSG00000065243 | PKN2
Description
protein kinase N2 [Source:HGNC Symbol;Acc:9406]
Coordinates
chr1:89271574-89273126:+
Coord C1 exon
chr1:89271574-89271700
Coord A exon
chr1:89271701-89272995
Coord C2 exon
chr1:89272996-89273126
Length
1295 bp
Sequences
Splice sites
5' ss Seq
CAGGCAAGC
5' ss Score
2.13
3' ss Seq
GTGTATTTAATATTTTACAGGAT
3' ss Score
9.31
Exon sequences
Seq C1 exon
TGATTCTACAGTAACCAAATTGGACTTTGATCTTGAGCCTGAACCTCCTCCAGCCCCACCACGAGCTTCTTCTCTTGGAGAAATAGATGAATCTTCTGAATTAAGAGTTTTGGATATACCAGGACAG
Seq A exon
GCAAGCCATTTTAAACCTTGCATAATTCCTCTTCACTGAATGAATTAGCAATAAAAGCATCATAGTGAATAAGGCGTGTCTTTCCATTTAAAATTGCCACTGAACTGTGAATTTATGGTTTTTTGTTTGTTTTTTGTTTTTGTTTTTGTTTTTTGAGACAGAGTTTCACTCTTGTTACCCAGGCTGGAGTGCAATGGCATGATCTCGGCTCACTGCAACCTCCGCCTCCCGGATTCAAGCGATTCTCCTGCAAGCCATTCTCCTATCTCAGCCTCCTGAATAACTGGGGTTACAGGCACATGCCACCATGCCTGGCTAATTTTTGTATTTTCAGTAGAGATGGGATTTCATTATATTGGTCAGGCTGGTCTTAAACTCCTGACCTCGGGTGATCAGCCCGCCTCGGCCTTCCAAAGTGCTGGGATTACAGGCATGAGCCACTGCACCCAGCCGAATTTATGTTTCTTATGGTCTAGTCTCAGCTAAATTAGACTGAGTTGGTAGGAGACAACCAACTTCTTAATGTTGGCATGAAATTGTCATTAGCCTCTGGATGCTCATGGTCCAGAAGAGATAGAATAGGCTGCTTAAACTAGAGGTAATATAGGAGTGTGGTTGATACTACATGACATACTGCCTGAAATACTATTCTTCTTCTAACTTGATTAACATACATAATAATGTGTTAGTTTTTCATTGTTTTGGTTTTGTTTTGTTTTGAGACGGAGTTTTGCTCTTGTTGCCCAGGCTGGAGTGCAATGGCATGATCTTGGCTCACTGCAACCTCCGCCTCCTGGGTTCAAGTGATTCCACTGCCTCAGCCTCCCTAGTAGCTGGGATTACAGGCATGCACCACCACGCCCACTAGTTTTGTATTTTTAGTAGAGATAGGGTTTCTCCATGTTGGTCAGGCTGCTCTTGAACTCCTGATCTCAGGTGAGCCGCCCGCCTCGGCCTACCAAAGTGCTGGGATTACAGGCATGAGCCACCGTGCTCAGCCCAGTTTTTCATATTTTTTAGATAAGTTTAATATAAAAGCGATGGCTCCAGCTACTCGGGAGGCTGAGGTAGGAGGATTGCTTGTGGCTGGGAATTCAAGACCTCTCTAGGCAACATAGTGAGACCCACCTCTAAAAAAAGAAAAAAAAATTTTTTTAAAGAATGAGTATCTGAATTTTACTTTTCACTCCAACATTTATATTGACTTTTGAAATGTTTTTCCTTAATTTTATCATTATCAAATAAGTTGTTTTCTGGGTATTTCTATGGATTCACGTGTATTTAATATTTTACAG
Seq C2 exon
GATTCAGAGACTGTTTTTGATATTCAGAATGACAGAAATAGTATACTTCCAAAATCTCAATCTGAATACAAGCCTGATACTCCTCAGTCAGGCCTAGAATATAGTGGTATTCAAGAACTTGAGGACAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000065243-PKN2:NM_006256:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.744 A=NA C2=0.750
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGATTCTACAGTAACCAAATTGGACT
R:
TGTCCTCAAGTTCTTGAATACCACT
Band lengths:
254-1549
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)