Variant report

Variant	rs9378988
Chromosome Location	chr6:5833049-5833050
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs11757934	0.80[EUR][1000 genomes]
rs11961267	0.82[EUR][1000 genomes]
rs13191588	0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13204941	0.82[EUR][1000 genomes]
rs13205062	0.82[EUR][1000 genomes]
rs13205213	0.82[EUR][1000 genomes]
rs13208150	0.82[EUR][1000 genomes]
rs13208229	0.82[ASN][1000 genomes]
rs13218554	0.82[EUR][1000 genomes]
rs13218657	0.91[CEU][hapmap];0.90[JPT][hapmap];0.82[EUR][1000 genomes]
rs13218815	0.82[EUR][1000 genomes]
rs13218954	0.82[EUR][1000 genomes]
rs13219208	0.82[EUR][1000 genomes]
rs13219593	0.82[EUR][1000 genomes]
rs13219662	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13219875	0.82[EUR][1000 genomes]
rs13219882	0.82[EUR][1000 genomes]
rs13220220	0.82[EUR][1000 genomes]
rs1359052	0.95[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs1407795	0.91[CEU][hapmap];0.90[JPT][hapmap];0.82[EUR][1000 genomes]
rs1819201	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1830685	0.85[EUR][1000 genomes]
rs1830686	0.81[EUR][1000 genomes]
rs1830687	0.81[EUR][1000 genomes]
rs1830688	0.81[EUR][1000 genomes]
rs2004508	0.81[AMR][1000 genomes]
rs35541713	0.97[AFR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35636471	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4370407	0.81[EUR][1000 genomes]
rs4604310	0.91[CEU][hapmap];0.90[JPT][hapmap];0.82[EUR][1000 genomes]
rs57758371	0.97[AFR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs59550778	0.80[EUR][1000 genomes]
rs6932378	0.81[AMR][1000 genomes]
rs6934706	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6941973	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9392716	0.81[EUR][1000 genomes]
rs9392718	0.82[AFR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9405873	0.82[EUR][1000 genomes]
rs9405875	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9405876	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9502354	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9504540	0.88[EUR][1000 genomes]
rs9504542	0.86[EUR][1000 genomes]
rs9504546	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]

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	nsv5183	chr6:5821731-5866796	Active TSS Flanking Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv970075	chr6:5829270-5841514	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Genic enhancers ZNF genes & repeats	n/a	n/a	inside rSNPs	n/a

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:5827400-5835000	Enhancers	Fetal Thymus	thymus
2	chr6:5828200-5833800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr6:5829200-5835000	Enhancers	Primary T cells fromperipheralblood	blood
4	chr6:5830400-5833400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
5	chr6:5830600-5833600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
6	chr6:5830600-5834000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
7	chr6:5830600-5834200	Enhancers	Primary monocytes fromperipheralblood	blood
8	chr6:5830800-5834000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
9	chr6:5831000-5833400	Enhancers	Primary B cells from peripheral blood	blood
10	chr6:5831000-5834000	Enhancers	Primary B cells from cord blood	blood
11	chr6:5831400-5834000	Enhancers	Lung	lung
12	chr6:5831600-5834600	Enhancers	Thymus	Thymus
13	chr6:5832000-5834000	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
14	chr6:5832200-5834000	Enhancers	Primary hematopoietic stem cells short term culture	blood
15	chr6:5832200-5834200	Enhancers	Primary T helper cells fromperipheralblood	blood
16	chr6:5832200-5834200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
17	chr6:5832200-5835000	Enhancers	Primary neutrophils fromperipheralblood	blood
18	chr6:5832200-5835000	Enhancers	Primary T helper cells PMA-I stimulated	--
19	chr6:5832200-5840400	Weak transcription	Right Atrium	heart
20	chr6:5832400-5833400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
21	chr6:5832400-5833400	Enhancers	Dnd41	blood
22	chr6:5832400-5834400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
23	chr6:5832400-5834800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
24	chr6:5832600-5833200	Weak transcription	Spleen	Spleen
25	chr6:5832800-5833200	Flanking Active TSS	Primary T cells from cord blood	blood
26	chr6:5832800-5833200	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
27	chr6:5833000-5833200	Enhancers	Fetal Muscle Trunk	muscle
28	chr6:5833000-5833400	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
29	chr6:5833000-5833400	Enhancers	Adipose Nuclei	Adipose
30	chr6:5833000-5833400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
31	chr6:5833000-5833800	Enhancers	Primary T killer memory cells from peripheral blood	blood

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