Variant report

Variant	rs9852860
Chromosome Location	chr3:116026365-116026366
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs12491423	1.00[JPT][hapmap]
rs1541871	0.81[CEU][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.84[TSI][hapmap]
rs1619655	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17646258	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1835674	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1920185	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1920189	0.83[EUR][1000 genomes]
rs2163504	0.93[CEU][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.90[TSI][hapmap];0.93[EUR][1000 genomes]
rs28504104	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4521220	0.89[EUR][1000 genomes]
rs6785974	0.93[CEU][hapmap];0.85[EUR][1000 genomes]
rs724115	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs7627104	0.93[CEU][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.90[TSI][hapmap];0.93[EUR][1000 genomes]
rs7648197	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes]
rs9845203	1.00[CHB][hapmap];0.86[YRI][hapmap];0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9856796	0.93[CEU][hapmap];0.84[GIH][hapmap];0.93[MEX][hapmap];0.90[TSI][hapmap];0.88[EUR][1000 genomes]
rs988803	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv3957	chr3:115986950-116032625	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
2	nsv877361	chr3:116017931-116138039	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:116017000-116029600	Enhancers	Colon Smooth Muscle	Colon
2	chr3:116019200-116028400	Weak transcription	Brain Inferior Temporal Lobe	brain
3	chr3:116019600-116037000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr3:116022200-116033000	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr3:116024000-116028600	Weak transcription	Brain Anterior Caudate	brain
6	chr3:116025600-116027000	Weak transcription	Rectal Smooth Muscle	rectum
7	chr3:116025800-116026400	Enhancers	HUES48 Cell Line	embryonic stem cell
8	chr3:116025800-116027000	Weak transcription	Brain Substantia Nigra	brain
9	chr3:116025800-116028400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr3:116025800-116028400	Weak transcription	Brain Cingulate Gyrus	brain
11	chr3:116026000-116031600	Weak transcription	Brain Angular Gyrus	brain
12	chr3:116026000-116031600	Weak transcription	Brain Hippocampus Middle	brain
13	chr3:116026200-116027400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
14	chr3:116026200-116037200	Weak transcription	HUES64 Cell Line	embryonic stem cell

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

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