Variant report

Variant	rs3747781
Chromosome Location	chr6:24147409-24147410
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 8 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs11751907	0.81[GIH][hapmap];0.81[MKK][hapmap]
rs4449614	0.88[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs6456594	0.81[GIH][hapmap]
rs6924184	0.95[ASN][1000 genomes]
rs6937665	0.81[MKK][hapmap]
rs6938529	0.80[MKK][hapmap]
rs9393532	0.84[GIH][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1029930	chr6:23481989-24289948	Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs3747781	HIST1H1D	cis	parietal	SCAN
rs3747781	HIST1H2AK	cis	parietal	SCAN
rs3747781	HIST1H2BG	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:24142000-24148000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr6:24142000-24149800	Weak transcription	Fetal Brain Male	brain
3	chr6:24142200-24147800	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr6:24144800-24148400	Weak transcription	Fetal Brain Female	brain
5	chr6:24145600-24149600	Enhancers	Cortex derived primary cultured neurospheres	brain
6	chr6:24145800-24149400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr6:24145800-24149800	Enhancers	Brain Germinal Matrix	brain
8	chr6:24146400-24147800	Enhancers	HepG2	liver
9	chr6:24146400-24148600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr6:24146600-24147600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
11	chr6:24146600-24148200	Weak transcription	Brain Anterior Caudate	brain
12	chr6:24147200-24149000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr6:24147400-24148400	Enhancers	Brain Angular Gyrus	brain

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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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