Variant report

Variant	rs6897339
Chromosome Location	chr5:35925282-35925283
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr5:35777550..35778396-chr5:35924753..35925735,4	MCF-7	breast:
2	chr5:35851951..35852800-chr5:35924611..35925609,3	MCF-7	breast:
3	chr5:35089461..35090439-chr5:35925127..35925684,3	K562	blood:
4	chr5:35775517..35778648-chr5:35922425..35925646,3	MCF-7	breast:
5	chr5:35777443..35777952-chr5:35924770..35925395,2	MCF-7	breast:
6	chr5:35650804..35651626-chr5:35924832..35925489,2	MCF-7	breast:
7	chr5:35815372..35816380-chr5:35924753..35925794,5	MCF-7	breast:
8	chr5:35650884..35652138-chr5:35924738..35927702,19	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000168685	Chromatin interaction
ENSG00000113494	Chromatin interaction

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs10053847	0.87[CHD][hapmap]
rs10054418	0.83[ASN][1000 genomes]
rs1389834	0.87[CHD][hapmap]
rs6451239	0.82[ASN][1000 genomes]
rs6859892	0.81[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs9292618	0.87[CHD][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv471011	chr5:35861068-36003217	Weak transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS Active TSS Genic enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv830261	chr5:35863084-36018048	Weak transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv1025695	chr5:35902486-36036934	Bivalent Enhancer Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv4794	chr5:35906690-35934205	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:88 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:35923200-35925400	Enhancers	NHLF	lung
2	chr5:35923400-35925600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr5:35924000-35925600	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr5:35924000-35926800	Enhancers	Fetal Thymus	thymus
5	chr5:35924200-35925400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr5:35924200-35925600	Flanking Active TSS	Dnd41	blood
7	chr5:35924200-35925600	Flanking Active TSS	Osteobl	bone
8	chr5:35924200-35931000	Weak transcription	Gastric	stomach
9	chr5:35924400-35925400	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
10	chr5:35924400-35925600	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
11	chr5:35924400-35925600	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
12	chr5:35924400-35925600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr5:35924400-35925600	Flanking Active TSS	Thymus	Thymus
14	chr5:35924400-35925800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
15	chr5:35924400-35926000	Enhancers	Primary hematopoietic stem cells	blood
16	chr5:35924600-35925400	Flanking Active TSS	Muscle Satellite Cultured Cells	--
17	chr5:35924600-35925400	Flanking Active TSS	NHDF-Ad	bronchial
18	chr5:35924600-35925600	Bivalent Enhancer	Breast Myoepithelial Primary Cells	Breast
19	chr5:35924600-35925600	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr5:35924600-35925600	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr5:35924600-35926600	Enhancers	Primary hematopoietic stem cells short term culture	blood
22	chr5:35924800-35925400	Flanking Active TSS	Primary T killer naive cells fromperipheralblood	blood
23	chr5:35924800-35925400	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr5:35924800-35925400	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr5:35924800-35925400	Flanking Active TSS	Brain Anterior Caudate	brain
26	chr5:35924800-35925400	Flanking Active TSS	Brain Cingulate Gyrus	brain
27	chr5:35924800-35925400	Enhancers	Brain Substantia Nigra	brain
28	chr5:35924800-35925400	Bivalent Enhancer	Fetal Muscle Leg	muscle
29	chr5:35924800-35925400	Enhancers	GM12878-XiMat	blood
30	chr5:35924800-35925600	Flanking Active TSS	Primary T cells from cord blood	blood
31	chr5:35924800-35925600	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
32	chr5:35924800-35925600	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
33	chr5:35924800-35925600	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr5:35924800-35925600	Bivalent Enhancer	Duodenum Smooth Muscle	Duodenum
35	chr5:35924800-35925600	Bivalent Enhancer	Fetal Brain Male	brain
36	chr5:35924800-35926000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
37	chr5:35925000-35925400	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
38	chr5:35925000-35925400	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr5:35925000-35925400	Bivalent Enhancer	Adipose Nuclei	Adipose
40	chr5:35925000-35925400	Bivalent Enhancer	Liver	Liver
41	chr5:35925000-35925400	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
42	chr5:35925000-35925400	Enhancers	Lung	lung
43	chr5:35925000-35925400	Enhancers	Ovary	ovary
44	chr5:35925000-35925400	Enhancers	Pancreas	Pancrea
45	chr5:35925000-35925400	ZNF genes & repeats	Right Atrium	heart
46	chr5:35925000-35925400	Bivalent Enhancer	Skeletal Muscle Male	skeletal muscle
47	chr5:35925000-35925400	Bivalent Enhancer	Skeletal Muscle Female	skeletal muscle
48	chr5:35925000-35925600	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
49	chr5:35925000-35925600	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
50	chr5:35925000-35925600	Bivalent Enhancer	NHEK	skin

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