Variant report

Variant	rs4951487
Chromosome Location	chr1:211088400-211088401
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 6 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs1501555	0.82[CEU][hapmap];0.95[MEX][hapmap];0.83[YRI][hapmap]
rs6540635	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs905115	0.93[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832503	chr1:210948760-211103163	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv873154	chr1:211057697-211117197	Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	nsv549124	chr1:211069694-211088474	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs4951487	IKBKE	cis	cerebellum	SCAN
rs4951487	CDK18	cis	cerebellum	SCAN
rs4951487	LQK1	cis	cerebellum	SCAN

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:211082800-211091000	Weak transcription	Brain Anterior Caudate	brain
2	chr1:211083000-211089600	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr1:211083000-211091000	Weak transcription	Brain Angular Gyrus	brain
4	chr1:211083000-211091000	Weak transcription	Brain Hippocampus Middle	brain
5	chr1:211083000-211091200	Weak transcription	Brain Substantia Nigra	brain
6	chr1:211083800-211089400	Weak transcription	HSMMtube	muscle
7	chr1:211084600-211089400	Weak transcription	HSMM	muscle
8	chr1:211085400-211089400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr1:211085600-211089000	Weak transcription	Liver	Liver
10	chr1:211085800-211091000	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr1:211087600-211091400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr1:211088000-211088400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr1:211088400-211091000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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