Variant report

Variant	rs952918
Chromosome Location	chr10:117885616-117885617
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs12776813	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12778200	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12778389	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12781677	1.00[YRI][hapmap]
rs17094114	0.92[CEU][hapmap];0.92[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];0.84[JPT][hapmap];0.86[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs17094234	1.00[LWK][hapmap];1.00[MKK][hapmap]
rs2420242	1.00[LWK][hapmap];1.00[MKK][hapmap]
rs34806371	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3781514	1.00[YRI][hapmap]
rs3781517	1.00[YRI][hapmap]
rs3781529	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3781531	1.00[CEU][hapmap];0.92[CHB][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3900762	0.92[CEU][hapmap];0.92[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap];0.94[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs67861661	0.94[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[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	nsv428568	chr10:117806874-117972993	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Active TSS Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	esv3449389	chr10:117806874-118102404	Active TSS Enhancers Bivalent Enhancer Strong transcription Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	esv34187	chr10:117857916-117894117	Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs952918	GPR142	trans	cerebellum	SCAN

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:117880400-117892200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr10:117881800-117886000	Weak transcription	Skeletal Muscle Male	skeletal muscle
3	chr10:117881800-117887600	Weak transcription	HSMMtube	muscle
4	chr10:117883200-117886000	Weak transcription	HSMM	muscle
5	chr10:117884800-117886200	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr10:117884800-117892800	Weak transcription	Stomach Smooth Muscle	stomach
7	chr10:117885000-117885800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr10:117885000-117885800	Weak transcription	Fetal Muscle Leg	muscle
9	chr10:117885000-117886000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr10:117885000-117887200	Weak transcription	Liver	Liver
11	chr10:117885000-117889400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr10:117885200-117885800	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr10:117885200-117892000	Weak transcription	Fetal Stomach	stomach
14	chr10:117885200-117896400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr10:117885600-117886000	Enhancers	Brain Germinal Matrix	brain

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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