Variant report

Variant	rs1535946
Chromosome Location	chr6:33871100-33871101
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:33869569..33871113-chr6:33874959..33876852,2	K562	blood:
2	chr6:33863052..33865813-chr6:33870777..33873506,3	MCF-7	breast:
3	chr6:33870279..33872339-chr6:33881420..33883614,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MLN-4	chr6:33870342-33871829	NONHSAT110938
2	lnc-ITPR3-5	chr6:33868399-33871654	NONHSAT110812

Variant related genes	Relation type
ENSG00000249346	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10807129	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1324579	0.97[EUR][1000 genomes]
rs1408503	0.91[CEU][hapmap];0.91[EUR][1000 genomes]
rs1535940	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1535941	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1535943	0.90[EUR][1000 genomes]
rs1535944	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1535945	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1535947	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1969843	0.94[EUR][1000 genomes]
rs2093907	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2147423	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2147426	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2147427	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2147428	1.00[ASN][1000 genomes]
rs2181916	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2477228	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2477231	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2477232	0.96[EUR][1000 genomes]
rs2477235	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2477236	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2477237	0.96[EUR][1000 genomes]
rs2499681	0.82[EUR][1000 genomes]
rs2499737	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4711364	0.91[CEU][hapmap];1.00[CHB][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4711365	1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4713715	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4713716	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4713717	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4713721	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6457747	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6921366	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9296103	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9368781	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs942506	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs942508	1.00[CHB][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs942509	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs942510	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs942511	0.83[EUR][1000 genomes]

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	nsv916210	chr6:33804111-34144062	Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	32 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:33850000-33871800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr6:33865000-33871200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
3	chr6:33865600-33871600	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr6:33865600-33883000	Weak transcription	Esophagus	oesophagus
5	chr6:33866000-33871800	Weak transcription	Pancreas	Pancrea
6	chr6:33866400-33871800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr6:33866600-33871600	Enhancers	Fetal Thymus	thymus
8	chr6:33868200-33871600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr6:33868200-33877800	Enhancers	Primary hematopoietic stem cells	blood
10	chr6:33868600-33871400	Weak transcription	Spleen	Spleen
11	chr6:33868800-33871800	Enhancers	Primary hematopoietic stem cells short term culture	blood
12	chr6:33868800-33871800	Weak transcription	Liver	Liver
13	chr6:33869400-33871800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr6:33869600-33871800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr6:33869600-33873400	Flanking Active TSS	K562	blood
16	chr6:33869800-33871200	Weak transcription	Duodenum Mucosa	Duodenum
17	chr6:33869800-33871400	Weak transcription	Thymus	Thymus
18	chr6:33869800-33872000	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr6:33870200-33871600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
20	chr6:33870200-33871800	Enhancers	Primary T cells fromperipheralblood	blood
21	chr6:33870200-33871800	Enhancers	Primary T helper naive cells from peripheral blood	blood
22	chr6:33870400-33871400	Enhancers	Primary T killer memory cells from peripheral blood	blood
23	chr6:33870400-33871600	Enhancers	Primary T cells from cord blood	blood
24	chr6:33870400-33871600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
25	chr6:33870400-33871800	Enhancers	Primary T helper cells fromperipheralblood	blood
26	chr6:33870600-33871600	Enhancers	Primary T helper cells PMA-I stimulated	--
27	chr6:33870600-33872000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
28	chr6:33870600-33872600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
29	chr6:33870800-33872000	Bivalent Enhancer	Placenta	Placenta
30	chr6:33870800-33875200	Enhancers	Primary B cells from peripheral blood	blood
31	chr6:33870800-33876600	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
32	chr6:33871000-33871800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
33	chr6:33871000-33871800	Enhancers	Adipose Nuclei	Adipose
34	chr6:33871000-33872600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell

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