Variant report

Variant	rs16878812
Chromosome Location	chr6:35569562-35569563
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:35556174..35558038-chr6:35568074..35570018,2	MCF-7	breast:
2	chr6:35569080..35571886-chr6:35578930..35581729,3	K562	blood:
3	chr6:35567248..35569815-chr6:35570869..35573754,2	MCF-7	breast:
4	chr6:35568378..35571092-chr6:35588420..35590433,2	K562	blood:
5	chr6:35569328..35571242-chr6:35694203..35697071,2	MCF-7	breast:
6	chr6:35566723..35569701-chr6:35703866..35705522,2	K562	blood:

Variant related genes	Relation type
ENSG00000157343	Chromatin interaction
ENSG00000096060	Chromatin interaction
ENSG00000232909	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10498734	0.84[AMR][1000 genomes]
rs11966198	0.87[AFR][1000 genomes]
rs12527329	0.84[AMR][1000 genomes]
rs12527893	0.84[AMR][1000 genomes]
rs16879318	0.85[AFR][1000 genomes]
rs16879378	0.85[AFR][1000 genomes]
rs4711423	0.98[EUR][1000 genomes]
rs4713895	0.95[EUR][1000 genomes]
rs55922240	0.84[AMR][1000 genomes]
rs58062737	0.98[EUR][1000 genomes]
rs6906359	0.89[EUR][1000 genomes]
rs72913423	0.84[AMR][1000 genomes]
rs72913427	0.84[AMR][1000 genomes]
rs72921231	0.84[AMR][1000 genomes]
rs747411	0.84[AMR][1000 genomes]
rs7747121	0.89[AFR][1000 genomes]
rs7754668	0.84[AMR][1000 genomes]
rs7756437	0.82[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758048	chr6:35463741-35806504	Genic enhancers Weak transcription Active TSS Bivalent Enhancer Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	esv2759420	chr6:35463741-35806504	Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
3	esv2761067	chr6:35471246-35573245	Weak transcription Genic enhancers Strong transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv1031987	chr6:35476562-35579375	Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
5	nsv462913	chr6:35502202-35592744	Enhancers Genic enhancers ZNF genes & repeats Strong transcription Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
6	nsv602923	chr6:35502202-35592744	Enhancers Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' 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
7	nsv517211	chr6:35502202-35607571	Enhancers Weak transcription Transcr. at gene 5' and 3' Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats 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
8	nsv1023091	chr6:35502604-35573233	Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
9	nsv1017625	chr6:35505311-35576552	Transcr. at gene 5' and 3' Strong transcription Enhancers Genic enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats 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
10	nsv1019593	chr6:35505311-35579375	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats 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
11	nsv602924	chr6:35505311-35750299	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
12	nsv1022049	chr6:35506731-35576552	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
13	nsv1025296	chr6:35507179-35579375	Enhancers Genic enhancers Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
14	nsv885801	chr6:35537406-35671651	Enhancers Active TSS Strong transcription Flanking Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
15	esv3430300	chr6:35549151-35959004	Flanking Active TSS Strong transcription Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:35541200-35570200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr6:35545000-35601800	Weak transcription	Fetal Intestine Small	intestine
3	chr6:35558600-35580400	Weak transcription	Fetal Muscle Trunk	muscle
4	chr6:35565200-35569600	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr6:35565200-35569800	Weak transcription	Gastric	stomach
6	chr6:35565400-35570400	Weak transcription	Colonic Mucosa	Colon
7	chr6:35565400-35571600	Weak transcription	Spleen	Spleen
8	chr6:35565400-35579800	Weak transcription	Ovary	ovary
9	chr6:35566200-35571800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr6:35567000-35569600	Enhancers	Fetal Heart	heart
11	chr6:35567200-35569600	Enhancers	Primary monocytes fromperipheralblood	blood
12	chr6:35567600-35569600	Enhancers	Rectal Mucosa Donor 31	rectum
13	chr6:35567800-35569600	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
14	chr6:35567800-35570000	Enhancers	Breast Myoepithelial Primary Cells	Breast
15	chr6:35567800-35570200	Enhancers	Fetal Lung	lung
16	chr6:35567800-35570600	Bivalent Enhancer	Dnd41	blood
17	chr6:35567800-35570800	Enhancers	Fetal Stomach	stomach
18	chr6:35567800-35571200	Enhancers	Stomach Mucosa	stomach
19	chr6:35568000-35569600	Flanking Active TSS	Primary T cells from cord blood	blood
20	chr6:35568000-35570600	Enhancers	Fetal Kidney	kidney
21	chr6:35568000-35570800	Enhancers	Primary B cells from peripheral blood	blood
22	chr6:35568000-35571000	Enhancers	Primary hematopoietic stem cells short term culture	blood
23	chr6:35568200-35569600	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
24	chr6:35568200-35570000	Enhancers	Liver	Liver
25	chr6:35568200-35572000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr6:35568400-35570000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr6:35568400-35570400	Flanking Active TSS	HUVEC	blood vessel
28	chr6:35568400-35570800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr6:35568400-35570800	Flanking Active TSS	NHEK	skin
30	chr6:35568400-35571000	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
31	chr6:35568400-35571000	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
32	chr6:35568400-35571000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
33	chr6:35568400-35571200	Enhancers	Placenta Amnion	Placenta Amnion
34	chr6:35568600-35569600	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr6:35568600-35569600	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
36	chr6:35568600-35569600	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
37	chr6:35568600-35569600	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
38	chr6:35568600-35569600	Enhancers	GM12878-XiMat	blood
39	chr6:35568600-35569800	Flanking Active TSS	Brain Cingulate Gyrus	brain
40	chr6:35568600-35570200	Active TSS	Right Atrium	heart
41	chr6:35568600-35570800	Enhancers	HUES48 Cell Line	embryonic stem cell
42	chr6:35568600-35570800	Enhancers	iPS-18 Cell Line	embryonic stem cell
43	chr6:35568600-35570800	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
44	chr6:35568600-35571000	Enhancers	iPS-15b Cell Line	embryonic stem cell
45	chr6:35568600-35571000	Enhancers	Fetal Brain Female	brain
46	chr6:35568600-35571200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
47	chr6:35568800-35569600	Flanking Active TSS	Primary hematopoietic stem cells	blood
48	chr6:35568800-35569600	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
49	chr6:35568800-35569800	Flanking Active TSS	Primary B cells from cord blood	blood
50	chr6:35568800-35570200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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