HsaINT0126150 @ hg19
Intron Retention
Gene
ENSG00000065243 | PKN2
Description
protein kinase N2 [Source:HGNC Symbol;Acc:9406]
Coordinates
chr1:89298760-89301938:+
Coord C1 exon
chr1:89298760-89298840
Coord A exon
chr1:89298841-89298927
Coord C2 exon
chr1:89298928-89301938
Length
87 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGT
5' ss Score
10.75
3' ss Seq
TTTTTTATTTTATGATCCAGCTA
3' ss Score
7.06
Exon sequences
Seq C1 exon
CTGTTAAGAAGAAATCCTGAACGGCGCCTTGGGGCTAGCGAGAAAGATGCAGAGGATGTAAAAAAGCACCCATTTTTCCGG
Seq A exon
GTAAGTGTGACTATTTAAAATTTTTTATGAAACTAGAGCGATTAGATTTAACAAACTAAACTAGTCATTTTTTATTTTATGATCCAG
Seq C2 exon
CTAATTGATTGGAGCGCTCTGATGGACAAAAAAGTAAAGCCACCATTTATACCTACCATAAGAGGACGAGAAGATGTTAGTAATTTTGATGATGAATTTACCTCAGAAGCACCTATTCTGACTCCACCTCGAGAACCAAGGATACTTTCGGAAGAGGAGCAGGAAATGTTCAGAGATTTTGACTACATTGCTGATTGGTGTTAAGTTGCTAGACACTGCGAAACCAAGCTGACTCACAAGAAGACCTCTTAAAAATAGCAACCCTTCATTTGCTCTCTGTGCCACCAATAGCTTCTGAGTTTTTTGTTGTTGTTGTTTTTATTGAAACACGTGAAGATTTGTTTAAAAGTACCATTCTAATACTTCTTCAAAAGTGGCTCCTCATTGTACTTCAGCGTAAATATGAGCACTGGAAACAGTTTCATGGAGTTTAAGTTGAGTGAACATCGGCCATGAAAATCCATCACGAATACTTTTGGATCAATAGTCTATTTTTAAAAAGAAAGAAAAAAACCACTTTTTTATAGTCCCTAGCTTTGCCATATGCCCGCCTTAAGTGGAAGGAAAGTTAATCACTTAACTATGTTTTATAAAAAGAAAAAAGGGCTTGGAATGCTATTACTGTTCACACAAAGTATGATTCTGTTTGAATAAGGCAAATGCTCCTTTTTTTAAAAAAAAAGACATTACTGTAATATCAAAAACCGTGGCAGTTTGTATACAACTCGGGGCTTGATTTTTTTTAAAAAAACAGAATGAATTGATGTCTTATTTTATAAATGTTCTATATTTATTAGGAGAAAACTTTATATTGCCTTTTTTATCAATCATGTAACAGGCTTATAGCTTTCCAACAGAGCTGCTTGCCAAACAATTTTTTTTGTTTATTAAACAGTGCTGAAACAAACAGGATCAGCATTTACTTAAGATGTTAAGAATGAGGACTTTTAATCAGCCGAACCAAGATATTGTTACCTGTATGCATTCCCAAAGTCTAGATGCTCAGTATGTTCAGTCATATCTTTCAGAATCAGTGAACCGATTACCCTTTTTTTGGTATTCACTCTACATCTGCCAACCTAGTTCACCTTGGTTTTGTGTCTGCTGTAGAAGGGAACCATAACTTGGTTAAACCGTAGGGATTATCATTGTATACATGCTGTGAACATGTATATGTGCAAGTTTTAATGTATTCTATGTTGTAGGCTTATTATTTAATTTTACCACTTCATCACTTTTGTACAGTGGCCAAGCAGACACCTCAAACTCCAGCATTTACATTAAGTGCATTTGTACATTTTAGGCCACTGGATCCAGATTTTATATTGGCAGTTATTGAGGGCAAAAGCAATATATTGTAACAGAATGTATAAATATTTTTGATAAAACAGTCTATATTTTATTAAAAAATGAATTATAACACTAAAGCTGTACCTCAAAAGTCTCAAAAATAATTTGATGAAATATTTTATACAACTCTTCAAAGGATCCGTCTGTGGCTTTTTATACTCTTTTAGGGTTGTCTTTTTACAAACCATGACTTTCCACTTGCCTGTAGTTTTTTGTTTGTTTTGGTTTGGTTTGATTTTATATTTTTTTCTCCTAATCTATGACTTTATTGTTTTTTCTTAGTTTAGTAATAGCATCTTTGATCCTGTGCTTAGCATGTTAGGGTCATTATACCTCAGGAATAGCAAGCTGTTAAGTAACCATACTGAATTAACTATTTAATTACAGTGAGCTCATCTCTTAAAAATTGTTCAGGTGTAAATCTTATGAGAAACATGAAAAAGCACACTGATTTATGGAGAGTTGAGCTAAAAACATTTATAAATATTTGCTGGGATGTTTTAGCATCTTTTCATTGTACTCTGAGAACAATTAAAATTGTCCAGAGATCATTTATATTACCTTCCAAATTGTTTATTACCCAAGATCCTTTGGGAGAAAATCTTATAGAATGGGGGAACAATATGTGGTTTAAAGTTATTTTAAAATGCCAGTTAATTTCCTCGGCAAAGGACAATAGAGGAACTTAGCTTAATTGTCTGGCTTTAATTTAAACTGTGTTAATACAACATTAAAATAAAACACTAAATACTTTTGAGGTACAGTCTGCTCACTTTTTTGGTTCTCAAATAGCAAAGAAAGTAATGTCTAAAATAGGCTCTTAGCATTAAAAACTGACAGCATTTCGTAACTACACAGTGTACAGAATTTTTTTTTAATTGAAGTCAATCACTAAAAAAATTAGAAGGCAGGGTCTATTTACACAATTAAGCTGAAGAAAGCACTAATTTTTTGTAGTTTAAAATATATATATATTTTAGTCAGATTTAAAATTTTAAGCTTTATAGAGTGTAAATATATTTTGCTATTACTGTATGTGTATGTGACTGCTCAAGCACTTTGTAAAGAAATTAGGATATTTTAGAATGGTACACTATGCATTCAAATGAAATGTGCCTTTCACTATGTCATTCTAAGAAAACAAGTGTTTTTTGCAGTCATAAATTATCACAAATGCACAAATTAAAGTCTATATAGATTGAAATTTGTAACTTTGGTTTTAAGTATTCTTTCCTTTTAGAAACTTCCTAATGATTAAAATATACTTTAACTTTTCTGTGTTCAAAATCTCAAAGACTAATTAACTTTAATAAACATTCTTGCAAGTACTTTTTGTCCTAGTGAAGGCTTAAAACCATGAACATTCAGAGCAAACTGTCCACTTCATTGGGAATAATGGGAAAAGTTTGTATTCTGCTCCTGTAAGGTCAGTAGCATCTTTTATTTGAAGCATATTTATGGACTGCTTACTGTGTATAGATACTGAGAATAGGAAGTTTTTTTTTTTAAAGCAACAAAATGTTGATGAATGAAGAACAGCCTGTTTTAATTAAGATGCAAGCACCAGTATTGTATGTACTTTTCTCTTGTTTGAGGTTAGCTTATTTTAATTTAGGACCTGGCTTCTCAAAAAGGCAAATGAATAAAACAGAATACTAGTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000065243-PKN2:NM_006256:21
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.148 A=NA C2=0.239
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGAGAAAGATGCAGAGGATGT
R:
GGTTCTCGAGGTGGAGTCAGA
Band lengths:
181-268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)