Variant report

Variant	rs7753275
Chromosome Location	chr6:88225698-88225699
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	chr6:88222890..88225821-chr6:88239484..88241422,2	MCF-7	breast:
2	chr6:88223450..88226414-chr6:88409744..88412140,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000135334	Chromatin interaction

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs16879289	0.91[CEU][hapmap];0.80[CHB][hapmap]
rs16879559	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs16879704	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap]
rs2179845	0.80[CHB][hapmap]
rs2300901	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2300903	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs28381470	0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs28381475	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs3763177	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap]
rs3819893	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4398698	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4615353	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs55755139	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs55885817	0.84[AFR][1000 genomes];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs55916435	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs55985738	0.82[AMR][1000 genomes]
rs56092913	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs56136150	0.86[AFR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs56293538	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs56386021	0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs60316099	0.84[AMR][1000 genomes]
rs66464758	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs66663658	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs66833561	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs66937072	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs67371470	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs67956402	0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs67978476	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs68105619	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6903825	0.88[EUR][1000 genomes]
rs6906734	1.00[CEU][hapmap];0.90[CHB][hapmap];0.85[JPT][hapmap]
rs6923655	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6924641	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6933305	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72922526	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72922561	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72922577	0.88[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs7742293	0.80[CHB][hapmap]
rs7747792	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs7752473	0.82[AMR][1000 genomes]
rs7760237	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap]
rs7769144	0.82[AMR][1000 genomes]
rs8802	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9450684	0.80[CHB][hapmap]

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	nsv1018155	chr6:88049729-88272862	Strong transcription Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv1031961	chr6:88110401-88367006	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
3	nsv1031460	chr6:88153079-88410050	Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
4	nsv1026482	chr6:88164934-88409728	Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
5	nsv1027706	chr6:88168987-88409728	Genic enhancers Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking 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	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:88183600-88226000	Weak transcription	Gastric	stomach
2	chr6:88183800-88227400	Weak transcription	Right Ventricle	heart
3	chr6:88191200-88227400	Weak transcription	Spleen	Spleen
4	chr6:88193600-88227600	Weak transcription	Pancreas	Pancrea
5	chr6:88193800-88227400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr6:88194000-88226200	Weak transcription	Lung	lung
7	chr6:88194000-88249000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr6:88194600-88228200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr6:88200600-88227400	Weak transcription	Small Intestine	intestine
10	chr6:88207200-88242600	Strong transcription	Monocytes-CD14+_RO01746	blood
11	chr6:88210200-88231400	Strong transcription	Primary neutrophils fromperipheralblood	blood
12	chr6:88210200-88232800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr6:88210200-88240600	Strong transcription	Primary monocytes fromperipheralblood	blood
14	chr6:88210400-88235000	Strong transcription	Rectal Mucosa Donor 31	rectum
15	chr6:88210800-88230800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
16	chr6:88210800-88230800	Strong transcription	Fetal Thymus	thymus
17	chr6:88210800-88231400	Strong transcription	Osteobl	bone
18	chr6:88210800-88235000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr6:88211000-88231400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr6:88211000-88235000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr6:88211000-88235200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr6:88211000-88241200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr6:88211200-88230800	Strong transcription	Liver	Liver
24	chr6:88212000-88245200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr6:88212800-88227400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
26	chr6:88213000-88226200	Weak transcription	Brain Hippocampus Middle	brain
27	chr6:88213400-88227200	Weak transcription	Psoas Muscle	Psoas
28	chr6:88213400-88227400	Weak transcription	Esophagus	oesophagus
29	chr6:88214000-88231400	Strong transcription	NH-A	brain
30	chr6:88214200-88231400	Strong transcription	Rectal Mucosa Donor 29	rectum
31	chr6:88214200-88244400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
32	chr6:88214600-88226200	Weak transcription	Fetal Heart	heart
33	chr6:88214800-88235400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr6:88215000-88226000	Weak transcription	HSMMtube	muscle
35	chr6:88215000-88231400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
36	chr6:88215200-88235000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr6:88215200-88235000	Strong transcription	Duodenum Mucosa	Duodenum
38	chr6:88215800-88240800	Strong transcription	HUES64 Cell Line	embryonic stem cell
39	chr6:88216200-88231800	Strong transcription	HSMM	muscle
40	chr6:88217400-88226000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
41	chr6:88217400-88232800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr6:88217600-88230800	Strong transcription	GM12878-XiMat	blood
43	chr6:88217800-88231800	Strong transcription	HUES6 Cell Line	embryonic stem cell
44	chr6:88217800-88295800	Weak transcription	Fetal Brain Male	brain
45	chr6:88218200-88235200	Strong transcription	HUES48 Cell Line	embryonic stem cell
46	chr6:88218400-88226200	Weak transcription	H9 Cell Line	embryonic stem cell
47	chr6:88218600-88230600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
48	chr6:88218600-88230800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
49	chr6:88218600-88231400	Strong transcription	Primary T cells fromperipheralblood	blood
50	chr6:88218600-88231400	Strong transcription	Fetal Muscle Trunk	muscle

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