HsaINT0112602 @ hg19
Intron Retention
Gene
ENSG00000119408 | NEK6
Description
NIMA (never in mitosis gene a)-related kinase 6 [Source:HGNC Symbol;Acc:7749]
Coordinates
chr9:127054250-127055292:+
Coord C1 exon
chr9:127054250-127054367
Coord A exon
chr9:127054368-127055127
Coord C2 exon
chr9:127055128-127055292
Length
760 bp
Sequences
Splice sites
5' ss Seq
AAGGTACCC
5' ss Score
9.16
3' ss Seq
AGGACATTTCCATGTTCAAGGAG
3' ss Score
2.31
Exon sequences
Seq C1 exon
CACCCACCCCAGCCCAGAGAGGCGACCCAGCTCCCTGGAGGCCCAGGCACCTCATGTCTGCCCTCAACCCAGAGTGGAGCAGACCTTCCCTGGAGCTTCTCAGGAGCCACTTCAAAAG
Seq A exon
GTACCCTGACTTTCTCTGCCTCCTGCTGTGGGAACCGCTTGCTCTTAGGGGTGTGTCCAGCGAGGGATGGGGAACCAGGCCCCAGGGACCTCCAGGGCTGGAGCTCCAGGGACCTTGACCTGGCTGCACCTCTGCCACCCACCGCTGGCTCAGCCACCTGCTGGTGGGGCTGCCCATTCAGCCAGTCCCACCAACCTGACAGGACCTTTGCCACTAGCCTGGGACAGGGGTGGCTGCTGATGGCTGCTTTCACATTGAGTAATCCCTGGGCTTGGCCAGAACTTCTGAGTTTCCAGGGAAGCAGAAAAAGCAATTCTTTCTCTAGGGTGGGTTTTGTCTGCCCCTTCCTGCCTGTGGGAAGGAGAGAAAATTAGGGGAGGCCACGGGCTTGAAAGCTTTCCCTGCATGGAGGCCACTGGATGGGATTCTAGATGCTCGCCTGGGACCCAGGGTGAGTTTTTTACAAACACCGAAGCCCTCCAGCCCCCGGGGCTGTTCCACTTGGTCCTTCTTCCACTGTCAGTCAGCAGGGTAGTAGCTGCGGTTCTGCTCTGAAATCCATCCCTTCCCTTAAGCCCCAGCCTCTCCCCAGTGGTCCCCCTGGCATGAGTTGGTCTCGGGGGGCCAGGCTTCTCCCTCCTGGCCTCAGGTGTTTCTGTACTGAGTCAGCAACCAGTTACCCAGCCTCTCCTCTGCCAACTGCTGGGGCCATGGAGAGAGTGGTTTAGTCTCTACCCTCAAGGACATTTCCATGTTCAAG
Seq C2 exon
GAGAAGAAGACACATGAATTAGAGACAGCACGGGGGAGCAGGCTGTGGAGCTGGGAGTGACGGGGTGAGTCCAGGAAGGCTGCCTGGAGGAGATGCCCAGGAGAGAAGTTTGCTGGGAGGCAGCTCATTTCCGGCAGGAGGAGCAGAGCCTGCCAAGGCCTCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000119408-NEK6:NM_001166171:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
NA
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACCCCAGCCCAGAGAGG
R:
AGGCTCTGCTCCTCCTGC
Band lengths:
265-1025
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)