Variant report

Variant	rs1539004
Chromosome Location	chr6:4936074-4936075
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:4932165..4934498-chr6:4934564..4936978,2	MCF-7	breast:
2	chr6:4934856..4938294-chr6:4940217..4942355,4	K562	blood:
3	chr6:4928518..4932053-chr6:4933158..4936712,4	K562	blood:
4	chr6:4807577..4808212-chr6:4936011..4936824,2	MCF-7	breast:
5	chr6:4804988..4807202-chr6:4935507..4937901,2	MCF-7	breast:
6	chr6:4895552..4898215-chr6:4935545..4937308,2	K562	blood:

Variant related genes	Relation type
ENSG00000153046	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs4960051	0.82[YRI][hapmap];0.85[AMR][1000 genomes]
rs4960052	0.81[YRI][hapmap]
rs6937699	0.85[AMR][1000 genomes]
rs808620	1.00[MEX][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	nsv1023527	chr6:4729592-5387176	Strong transcription Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	esv2422499	chr6:4745428-5073222	Enhancers Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
3	nsv830577	chr6:4834567-5050544	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv462622	chr6:4904380-5172009	Active TSS Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer 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	19 gene(s)	inside rSNPs	diseases
5	nsv600871	chr6:4904380-5172009	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:110 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:4913200-4941000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr6:4913600-4938000	Weak transcription	Primary B cells from peripheral blood	blood
3	chr6:4915800-4942400	Weak transcription	Aorta	Aorta
4	chr6:4923000-4937800	Weak transcription	Primary T cells from cord blood	blood
5	chr6:4925600-4941600	Weak transcription	Primary hematopoietic stem cells	blood
6	chr6:4927600-4940200	Weak transcription	Primary T helper cells PMA-I stimulated	--
7	chr6:4929400-4941600	Weak transcription	Osteobl	bone
8	chr6:4930200-4939800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
9	chr6:4930800-4940200	Weak transcription	NH-A	brain
10	chr6:4930800-4940600	Weak transcription	Primary T helper cells fromperipheralblood	blood
11	chr6:4932000-4942000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr6:4932200-4940800	Weak transcription	HUES64 Cell Line	embryonic stem cell
13	chr6:4932200-4945000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr6:4932400-4936200	Weak transcription	Brain Inferior Temporal Lobe	brain
15	chr6:4932400-4936600	Weak transcription	Brain Anterior Caudate	brain
16	chr6:4932400-4936800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr6:4932400-4936800	Weak transcription	NHLF	lung
18	chr6:4932400-4941000	Weak transcription	HSMM	muscle
19	chr6:4932400-4941400	Weak transcription	NHDF-Ad	bronchial
20	chr6:4932400-4941600	Weak transcription	Muscle Satellite Cultured Cells	--
21	chr6:4932400-4942000	Weak transcription	Stomach Smooth Muscle	stomach
22	chr6:4932400-4942400	Weak transcription	Duodenum Smooth Muscle	Duodenum
23	chr6:4932600-4936200	Weak transcription	Fetal Heart	heart
24	chr6:4932600-4936400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
25	chr6:4932600-4936600	Weak transcription	Stomach Mucosa	stomach
26	chr6:4932600-4940600	Weak transcription	Placenta Amnion	Placenta Amnion
27	chr6:4932600-4941000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr6:4932600-4942200	Weak transcription	HUES6 Cell Line	embryonic stem cell
29	chr6:4932600-4944200	Weak transcription	HUES48 Cell Line	embryonic stem cell
30	chr6:4932600-4944600	Weak transcription	Colonic Mucosa	Colon
31	chr6:4932800-4936200	Weak transcription	A549	lung
32	chr6:4932800-4944400	Weak transcription	Thymus	Thymus
33	chr6:4933000-4938000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr6:4933000-4940200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
35	chr6:4933000-4942200	Weak transcription	Fetal Intestine Large	intestine
36	chr6:4933000-4944400	Weak transcription	H9 Cell Line	embryonic stem cell
37	chr6:4933200-4936400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
38	chr6:4933200-4938200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr6:4933200-4940600	Weak transcription	HMEC	breast
40	chr6:4933200-4941600	Weak transcription	Ovary	ovary
41	chr6:4933400-4941000	Weak transcription	Psoas Muscle	Psoas
42	chr6:4933400-4941800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr6:4933400-4942000	Weak transcription	Colon Smooth Muscle	Colon
44	chr6:4933400-4944600	Weak transcription	Pancreas	Pancrea
45	chr6:4933600-4936600	Weak transcription	Adipose Nuclei	Adipose
46	chr6:4933600-4936600	Weak transcription	Rectal Mucosa Donor 29	rectum
47	chr6:4933600-4936800	Weak transcription	HUVEC	blood vessel
48	chr6:4933600-4937400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
49	chr6:4933600-4938400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
50	chr6:4933600-4940800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland

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