Variant report

Variant	rs13197551
Chromosome Location	chr6:35283958-35283959
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	chr6:35275753..35280306-chr6:35283312..35286403,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000023892	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10755687	0.85[ASN][1000 genomes]
rs10807150	0.87[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs10947542	0.81[ASN][1000 genomes]
rs1108709	0.81[ASN][1000 genomes]
rs12211943	0.81[ASN][1000 genomes]
rs1557567	0.82[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs1557568	0.82[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs1987673	0.81[ASN][1000 genomes]
rs2071920	0.84[ASN][1000 genomes]
rs2267657	0.82[ASN][1000 genomes]
rs2395614	0.82[ASN][1000 genomes]
rs3777742	0.81[ASN][1000 genomes]
rs3777743	0.81[ASN][1000 genomes]
rs4713850	0.81[ASN][1000 genomes]
rs6457812	0.80[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs6906987	0.83[ASN][1000 genomes]
rs6907364	0.89[ASN][1000 genomes]
rs6913475	0.82[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs6920432	0.85[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs6930562	0.80[ASN][1000 genomes]
rs6941471	0.82[ASN][1000 genomes]
rs7757316	0.83[ASN][1000 genomes]
rs7772302	0.82[ASN][1000 genomes]
rs8205	0.84[ASN][1000 genomes]
rs9366882	0.84[ASN][1000 genomes]
rs9462065	0.84[ASN][1000 genomes]
rs9469972	0.84[ASN][1000 genomes]
rs9469975	0.83[ASN][1000 genomes]
rs9469982	0.84[ASN][1000 genomes]
rs9469997	0.81[ASN][1000 genomes]
rs9469998	0.83[ASN][1000 genomes]
rs965272	0.83[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs968828	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758047	chr6:35168116-35291002	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
2	esv2759419	chr6:35168116-35291002	Weak transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
3	nsv830641	chr6:35282534-35440603	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	57 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:63 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:35265200-35285600	Weak transcription	Brain Substantia Nigra	brain
2	chr6:35271400-35285000	Weak transcription	HepG2	liver
3	chr6:35271600-35285200	Weak transcription	Fetal Intestine Large	intestine
4	chr6:35271600-35285600	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr6:35272400-35284600	Weak transcription	HMEC	breast
6	chr6:35272400-35285400	Weak transcription	Gastric	stomach
7	chr6:35276000-35293800	Weak transcription	K562	blood
8	chr6:35277000-35285400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr6:35278200-35285600	Weak transcription	Colonic Mucosa	Colon
10	chr6:35278600-35285400	Weak transcription	Pancreas	Pancrea
11	chr6:35279000-35285400	Weak transcription	Esophagus	oesophagus
12	chr6:35279000-35285600	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr6:35279400-35285400	Weak transcription	Right Atrium	heart
14	chr6:35280000-35285200	Weak transcription	Skeletal Muscle Female	skeletal muscle
15	chr6:35280000-35285400	Weak transcription	Rectal Smooth Muscle	rectum
16	chr6:35280200-35285200	Weak transcription	Duodenum Smooth Muscle	Duodenum
17	chr6:35280200-35285400	Weak transcription	Left Ventricle	heart
18	chr6:35280200-35285600	Genic enhancers	Primary T helper memory cells from peripheral blood 2	blood
19	chr6:35280200-35285600	Weak transcription	Rectal Mucosa Donor 31	rectum
20	chr6:35280400-35285000	Genic enhancers	Primary T helper cells fromperipheralblood	blood
21	chr6:35280400-35285400	Weak transcription	Fetal Stomach	stomach
22	chr6:35280600-35284000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr6:35280600-35285000	Weak transcription	Spleen	Spleen
24	chr6:35280600-35285200	Weak transcription	Fetal Intestine Small	intestine
25	chr6:35280600-35285200	Weak transcription	Placenta	Placenta
26	chr6:35280600-35285400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
27	chr6:35280600-35285400	Weak transcription	Liver	Liver
28	chr6:35280600-35285600	Weak transcription	Lung	lung
29	chr6:35280800-35284200	Weak transcription	GM12878-XiMat	blood
30	chr6:35280800-35285000	Weak transcription	Rectal Mucosa Donor 29	rectum
31	chr6:35280800-35285200	Weak transcription	Duodenum Mucosa	Duodenum
32	chr6:35280800-35285200	Weak transcription	Thymus	Thymus
33	chr6:35280800-35285400	Weak transcription	Adipose Nuclei	Adipose
34	chr6:35280800-35285600	Strong transcription	Fetal Thymus	thymus
35	chr6:35280800-35293200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
36	chr6:35281000-35284000	Weak transcription	Dnd41	blood
37	chr6:35281000-35284400	Genic enhancers	Primary T regulatory cells fromperipheralblood	blood
38	chr6:35281000-35285400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
39	chr6:35281000-35285600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chr6:35281000-35285800	Weak transcription	NHEK	skin
41	chr6:35281600-35291600	Strong transcription	Primary B cells from peripheral blood	blood
42	chr6:35281800-35284000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
43	chr6:35281800-35284200	Weak transcription	Primary hematopoietic stem cells	blood
44	chr6:35281800-35284400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
45	chr6:35282000-35285400	Strong transcription	Primary T cells fromperipheralblood	blood
46	chr6:35282000-35285400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr6:35282000-35293400	Strong transcription	Primary neutrophils fromperipheralblood	blood
48	chr6:35282000-35293600	Strong transcription	Monocytes-CD14+_RO01746	blood
49	chr6:35282000-35293800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
50	chr6:35282200-35293600	Strong transcription	Primary monocytes fromperipheralblood	blood

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