Variant report

Variant	rs56140804
Chromosome Location	chr6:38078546-38078547
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:38074404..38075920-chr6:38078274..38080903,2	MCF-7	breast:
2	chr6:38072823..38074377-chr6:38076432..38078793,2	K562	blood:

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10456097	0.85[AFR][1000 genomes];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10947712	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10947713	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12190306	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12194618	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12194823	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12204352	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12212723	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12213151	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12214375	0.97[EUR][1000 genomes]
rs1569657	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16890344	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2281266	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2645102	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2645113	0.83[EUR][1000 genomes]
rs2645128	0.80[AFR][1000 genomes]
rs2645131	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2645134	0.93[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2645137	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2842500	0.88[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2842529	0.83[EUR][1000 genomes]
rs34952988	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35257826	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62397001	0.82[EUR][1000 genomes]
rs7747130	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs941850	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1028825	chr6:37495154-38278320	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv1017051	chr6:37789341-38084719	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv538203	chr6:37789341-38084719	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv1020625	chr6:37833591-38155622	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
5	nsv1021991	chr6:37893949-38738720	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
6	esv2754649	chr6:37985025-38147910	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
7	nsv885817	chr6:38036420-39019503	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
8	nsv534620	chr6:38049585-38602064	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:116 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:38030800-38085800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
2	chr6:38035000-38084000	Weak transcription	Stomach Smooth Muscle	stomach
3	chr6:38045600-38107000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
4	chr6:38045800-38079800	Weak transcription	HUES6 Cell Line	embryonic stem cell
5	chr6:38046000-38084200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr6:38049400-38084400	Weak transcription	Hela-S3	cervix
7	chr6:38052800-38083800	Weak transcription	Primary hematopoietic stem cells	blood
8	chr6:38052800-38084000	Weak transcription	Dnd41	blood
9	chr6:38053000-38084000	Weak transcription	Fetal Muscle Trunk	muscle
10	chr6:38053000-38090400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr6:38053200-38080000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
12	chr6:38053200-38084000	Weak transcription	Primary T helper cells fromperipheralblood	blood
13	chr6:38054200-38080000	Weak transcription	Psoas Muscle	Psoas
14	chr6:38054400-38084000	Weak transcription	Primary T cells fromperipheralblood	blood
15	chr6:38054600-38084000	Weak transcription	Primary T helper cells PMA-I stimulated	--
16	chr6:38055600-38084400	Weak transcription	Adipose Nuclei	Adipose
17	chr6:38055800-38084200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr6:38057200-38109200	Weak transcription	K562	blood
19	chr6:38059800-38091600	Weak transcription	Spleen	Spleen
20	chr6:38060000-38092000	Weak transcription	Aorta	Aorta
21	chr6:38060000-38099400	Weak transcription	Right Ventricle	heart
22	chr6:38060000-38108200	Weak transcription	Ovary	ovary
23	chr6:38063400-38083600	Weak transcription	HepG2	liver
24	chr6:38063400-38085600	Weak transcription	A549	lung
25	chr6:38063600-38078800	Weak transcription	Osteobl	bone
26	chr6:38063800-38099000	Weak transcription	NH-A	brain
27	chr6:38068400-38083800	Weak transcription	Primary B cells from peripheral blood	blood
28	chr6:38068400-38083800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
29	chr6:38068600-38084200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
30	chr6:38071800-38091400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
31	chr6:38072000-38085400	Weak transcription	GM12878-XiMat	blood
32	chr6:38072200-38079000	Weak transcription	Placenta Amnion	Placenta Amnion
33	chr6:38072200-38108400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
34	chr6:38072400-38079600	Weak transcription	HUES64 Cell Line	embryonic stem cell
35	chr6:38073000-38082400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
36	chr6:38073200-38081800	Weak transcription	NHEK	skin
37	chr6:38073200-38082400	Weak transcription	Small Intestine	intestine
38	chr6:38073400-38082200	Weak transcription	HMEC	breast
39	chr6:38073400-38084000	Weak transcription	HUVEC	blood vessel
40	chr6:38073600-38082800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
41	chr6:38074200-38086000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr6:38074600-38085800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
43	chr6:38074600-38086000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
44	chr6:38074800-38084200	Weak transcription	Placenta	Placenta
45	chr6:38075200-38084400	Weak transcription	Liver	Liver
46	chr6:38075200-38092000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
47	chr6:38075200-38118200	Weak transcription	Colonic Mucosa	Colon
48	chr6:38075400-38083600	Weak transcription	Primary monocytes fromperipheralblood	blood
49	chr6:38075400-38084400	Weak transcription	Primary neutrophils fromperipheralblood	blood
50	chr6:38075400-38103800	Weak transcription	Pancreas	Pancrea

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