Variant report

Variant	rs28398051
Chromosome Location	chr6:30180709-30180710
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:30033185..30035212-chr6:30180473..30182741,2	MCF-7	breast:
2	chr6:30179664..30181618-chr6:30294020..30296167,2	K562	blood:
3	chr1:156252214..156253047-chr6:30180654..30181178,2	Hela-S3	cervix:
4	chr6:30178310..30184484-chr6:30311860..30320436,13	MCF-7	breast:
5	chr6:30180620..30181382-chr6:32939585..32940405,2	Hela-S3	cervix:
6	chr11:63952885..63953627-chr6:30180687..30181425,2	Hela-S3	cervix:
7	chr6:30068684..30075353-chr6:30179679..30184952,7	MCF-7	breast:
8	chr6:30178635..30184988-chr6:30292357..30296104,9	MCF-7	breast:

Variant related genes	Relation type
ENSG00000204619	Chromatin interaction
ENSG00000231074	Chromatin interaction
ENSG00000168439	Chromatin interaction
ENSG00000198952	Chromatin interaction
ENSG00000204599	Chromatin interaction
ENSG00000241370	Chromatin interaction
ENSG00000163472	Chromatin interaction
ENSG00000204256	Chromatin interaction
ENSG00000231226	Chromatin interaction
ENSG00000204616	Chromatin interaction
ENSG00000224372	Chromatin interaction
ENSG00000270604	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs1573295	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2106070	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2106071	0.82[AMR][1000 genomes]
rs3094131	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs3094132	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3094139	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3094140	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3094614	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3094615	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3130381	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3130382	0.81[ASN][1000 genomes]
rs3130383	0.80[AFR][1000 genomes];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3130384	0.80[AFR][1000 genomes];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3130386	0.80[AFR][1000 genomes];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3130388	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3130389	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs3130391	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3130393	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs3130394	0.81[AMR][1000 genomes]
rs3132665	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3132668	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3132669	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3132671	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3132672	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3132673	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3132674	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7383511	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs916568	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs916571	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs916572	0.84[AMR][1000 genomes];0.81[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	esv1477506	chr6:30180709-30180712	Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS	Chromatin interactive region	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:30179400-30181400	Active TSS	GM12878-XiMat	blood
2	chr6:30179400-30182400	Active TSS	Fetal Intestine Small	intestine
3	chr6:30179600-30180800	Flanking Active TSS	Primary T cells from cord blood	blood
4	chr6:30179600-30180800	Flanking Active TSS	Adipose Nuclei	Adipose
5	chr6:30179600-30181000	Flanking Active TSS	Primary B cells from cord blood	blood
6	chr6:30179600-30181000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr6:30179600-30181400	Active TSS	Fetal Muscle Leg	muscle
8	chr6:30179600-30182200	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr6:30179600-30182400	Active TSS	Esophagus	oesophagus
10	chr6:30179800-30180800	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
11	chr6:30179800-30181000	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
12	chr6:30179800-30181000	Active TSS	Brain Germinal Matrix	brain
13	chr6:30179800-30182200	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr6:30179800-30182200	Active TSS	Colonic Mucosa	Colon
15	chr6:30179800-30182400	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr6:30179800-30182400	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr6:30179800-30182400	Active TSS	Aorta	Aorta
18	chr6:30179800-30182400	Active TSS	A549	lung
19	chr6:30179800-30182600	Flanking Active TSS	Primary hematopoietic stem cells	blood
20	chr6:30179800-30182600	Active TSS	Lung	lung
21	chr6:30180000-30180800	Weak transcription	Spleen	Spleen
22	chr6:30180000-30181400	Active TSS	Primary T cells fromperipheralblood	blood
23	chr6:30180000-30181400	Active TSS	HMEC	breast
24	chr6:30180000-30181600	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr6:30180000-30181800	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr6:30180000-30182200	Active TSS	HUES6 Cell Line	embryonic stem cell
27	chr6:30180000-30182200	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr6:30180000-30182200	Active TSS	Fetal Thymus	thymus
29	chr6:30180000-30182400	Active TSS	H1 Cell Line	embryonic stem cell
30	chr6:30180000-30182400	Active TSS	HUES48 Cell Line	embryonic stem cell
31	chr6:30180000-30182400	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr6:30180000-30182400	Active TSS	Fetal Intestine Large	intestine
33	chr6:30180000-30182400	Active TSS	Right Ventricle	heart
34	chr6:30180000-30182600	Active TSS	ES-I3 Cell Line	embryonic stem cell
35	chr6:30180000-30182600	Active TSS	H9 Cell Line	embryonic stem cell
36	chr6:30180000-30182600	Active TSS	Psoas Muscle	Psoas
37	chr6:30180000-30182600	Active TSS	Right Atrium	heart
38	chr6:30180200-30180800	Weak transcription	Gastric	stomach
39	chr6:30180200-30181400	Active TSS	iPS-15b Cell Line	embryonic stem cell
40	chr6:30180200-30181400	Active TSS	Primary Natural Killer cells fromperipheralblood	blood
41	chr6:30180200-30181400	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr6:30180200-30181400	Active TSS	Stomach Smooth Muscle	stomach
43	chr6:30180200-30181400	Bivalent/Poised TSS	HepG2	liver
44	chr6:30180200-30181400	Active TSS	NH-A	brain
45	chr6:30180200-30181400	Active TSS	NHEK	skin
46	chr6:30180200-30182000	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
47	chr6:30180200-30182000	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
48	chr6:30180200-30182200	Active TSS	iPS-20b Cell Line	embryonic stem cell
49	chr6:30180200-30182200	Active TSS	Breast Myoepithelial Primary Cells	Breast
50	chr6:30180200-30182200	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain

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