Variant report

Variant	rs645406
Chromosome Location	chr6:161430756-161430757
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:161429995..161433253-chr6:161449573..161453041,3	MCF-7	breast:
2	chr6:161411663..161414385-chr6:161429891..161432608,3	K562	blood:
3	chr6:161412828..161414850-chr6:161429891..161432608,3	K562	blood:
4	chr6:161422502..161428879-chr6:161429746..161435781,7	K562	blood:

Variant related genes	Relation type
ENSG00000272841	Chromatin interaction
ENSG00000085511	Chromatin interaction

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs12203648	0.89[CHB][hapmap];0.83[ASN][1000 genomes]
rs12665456	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13200744	0.84[CHB][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs35894036	0.93[ASN][1000 genomes]
rs4709485	0.95[CHB][hapmap];0.84[ASN][1000 genomes]
rs588284	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs589238	0.94[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs590988	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs593184	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs594555	0.88[CHB][hapmap];0.80[JPT][hapmap];0.87[ASN][1000 genomes]
rs594602	0.89[CHB][hapmap];0.87[ASN][1000 genomes]
rs619831	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs628075	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs629015	0.86[AFR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs630006	0.90[CHB][hapmap];0.87[ASN][1000 genomes]
rs630430	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs643706	0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs644110	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs655382	0.85[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs657616	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs671335	0.84[ASN][1000 genomes]
rs674220	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs675538	0.99[ASN][1000 genomes]
rs685939	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs686392	0.99[ASN][1000 genomes]
rs686755	0.99[ASN][1000 genomes]
rs6901173	0.89[CHB][hapmap];0.86[ASN][1000 genomes]
rs6901968	0.89[CHB][hapmap];0.86[ASN][1000 genomes]
rs6913867	0.90[CHB][hapmap];0.83[ASN][1000 genomes]
rs7756711	0.90[CHB][hapmap]
rs787784	0.98[ASN][1000 genomes]
rs796835	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9346844	0.89[EUR][1000 genomes]
rs9347478	0.89[CHB][hapmap];0.83[ASN][1000 genomes]
rs9355327	0.90[CHB][hapmap];0.85[ASN][1000 genomes]
rs9458114	1.00[CEU][hapmap];0.97[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2422347	chr6:161211171-161442377	Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1030045	chr6:161359075-161562255	Enhancers Strong transcription Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
3	nsv886817	chr6:161371621-161846654	Strong transcription Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
4	esv3381361	chr6:161373617-161864101	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
5	nsv1023982	chr6:161382188-161549831	Enhancers Active TSS ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:65 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:161413800-161432000	Weak transcription	Aorta	Aorta
2	chr6:161413800-161433000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr6:161414000-161430800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr6:161414000-161432000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr6:161414200-161431600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr6:161414200-161431600	Weak transcription	Rectal Smooth Muscle	rectum
7	chr6:161414200-161458200	Weak transcription	Rectal Mucosa Donor 29	rectum
8	chr6:161414400-161469600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr6:161414600-161432800	Weak transcription	Fetal Stomach	stomach
10	chr6:161414600-161442600	Weak transcription	Primary B cells from cord blood	blood
11	chr6:161414600-161457400	Weak transcription	Primary hematopoietic stem cells	blood
12	chr6:161415600-161450000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
13	chr6:161416600-161475200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
14	chr6:161416800-161436200	Weak transcription	Fetal Intestine Small	intestine
15	chr6:161417400-161449000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr6:161417800-161433600	Weak transcription	Primary T helper cells fromperipheralblood	blood
17	chr6:161418000-161432000	Weak transcription	Small Intestine	intestine
18	chr6:161418000-161432800	Weak transcription	Esophagus	oesophagus
19	chr6:161418000-161432800	Weak transcription	Right Atrium	heart
20	chr6:161418000-161434800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
21	chr6:161418000-161448800	Weak transcription	Lung	lung
22	chr6:161418400-161430800	Weak transcription	H1 Cell Line	embryonic stem cell
23	chr6:161418800-161432400	Weak transcription	Ovary	ovary
24	chr6:161420000-161434800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
25	chr6:161420800-161431800	Weak transcription	Fetal Lung	lung
26	chr6:161422800-161431200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
27	chr6:161422800-161431200	Weak transcription	HMEC	breast
28	chr6:161422800-161432000	Weak transcription	Brain Inferior Temporal Lobe	brain
29	chr6:161422800-161433600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
30	chr6:161422800-161434600	Weak transcription	Sigmoid Colon	Sigmoid Colon
31	chr6:161422800-161441000	Weak transcription	K562	blood
32	chr6:161423000-161431200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr6:161423000-161431200	Weak transcription	HSMM	muscle
34	chr6:161423000-161431800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
35	chr6:161423000-161431800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
36	chr6:161423000-161431800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr6:161423000-161431800	Weak transcription	Duodenum Smooth Muscle	Duodenum
38	chr6:161423000-161443000	Weak transcription	HepG2	liver
39	chr6:161423200-161433600	Weak transcription	Primary T helper cells PMA-I stimulated	--
40	chr6:161423200-161436200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr6:161423400-161432000	Weak transcription	Fetal Heart	heart
42	chr6:161424600-161431800	Weak transcription	NHLF	lung
43	chr6:161424800-161431000	Weak transcription	NHEK	skin
44	chr6:161424800-161431200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
45	chr6:161424800-161431200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr6:161424800-161431600	Weak transcription	Colon Smooth Muscle	Colon
47	chr6:161424800-161431800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
48	chr6:161424800-161431800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr6:161428200-161431800	Weak transcription	Brain Angular Gyrus	brain
50	chr6:161428400-161431200	Weak transcription	Osteobl	bone

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