Variant report

Variant	rs539759882
Chromosome Location	chr6:1604476-1604477
allele	C/G
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:12)
LncRNA
region (count:2)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:12 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:1604255..1605544-chr6:2104014..2105193,5	K562	blood:
2	chr6:1604279..1605453-chr6:2196023..2197192,6	K562	blood:
3	chr6:1604328..1605242-chr6:2035866..2036724,2	MCF-7	breast:
4	chr6:1604178..1605147-chr6:1698461..1699421,2	MCF-7	breast:
5	chr6:1604456..1604957-chr6:2104229..2104835,2	MCF-7	breast:
6	chr6:1604414..1605201-chr6:1686792..1687667,3	MCF-7	breast:
7	chr6:1598107..1600931-chr6:1602423..1604721,2	MCF-7	breast:
8	chr6:1604389..1605339-chr6:2037539..2038714,6	MCF-7	breast:
9	chr6:1596437..1597102-chr6:1604182..1604768,2	K562	blood:
10	chr6:1599906..1601907-chr6:1602978..1605536,2	K562	blood:
11	chr6:1603882..1604773-chr6:2196250..2196916,2	MCF-7	breast:
12	chr6:1603725..1606000-chr6:2194697..2196437,2	MCF-7	breast:

(count:2 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-GMDS-6	chr6:1603265-1608466	NONHSAT106529
2	lnc-FOXC1-1	chr6:1604457-1604593	NONHSAT106530

No data

Extended variants
information (count: 23 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:23 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024111	chr6:1231850-1730146	Flanking Active TSS Bivalent/Poised TSS Active TSS Enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv1021924	chr6:1254891-1736995	Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
3	nsv538082	chr6:1254891-1736995	Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
4	nsv917248	chr6:1365437-1627813	Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
5	nsv1034039	chr6:1427061-1691837	Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
6	nsv538088	chr6:1427061-1691837	Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
7	nsv530548	chr6:1441421-2351608	Weak transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
8	nsv1027393	chr6:1446300-1692019	Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Enhancers Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
9	nsv538089	chr6:1446300-1692019	Bivalent Enhancer Weak transcription Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
10	nsv1016859	chr6:1460020-1645819	Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
11	nsv883376	chr6:1535043-1635082	Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
12	nsv491607	chr6:1580681-1951526	Strong transcription Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
13	nsv1016594	chr6:1590030-1702529	Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Weak transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
14	nsv823394	chr6:1590091-1629146	Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
15	nsv883378	chr6:1593851-1623990	Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Flanking Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
16	nsv883379	chr6:1593851-1628902	Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
17	nsv823395	chr6:1595031-1629521	Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
18	nsv883380	chr6:1595216-1621404	Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
19	nsv883381	chr6:1595216-1628902	Flanking Active TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
20	nsv823396	chr6:1597359-1629106	Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
21	nsv883382	chr6:1598942-1620037	Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
22	esv3439668	chr6:1603778-1606326	Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Weak transcription Active TSS Enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
23	nsv823397	chr6:1603867-1622264	Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent/Poised TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:1596600-1604800	Weak transcription	Gastric	stomach
2	chr6:1604000-1604600	Bivalent Enhancer	Primary hematopoietic stem cells	blood
3	chr6:1604000-1604600	Bivalent Enhancer	Fetal Heart	heart
4	chr6:1604000-1604600	Flanking Bivalent TSS/Enh	HepG2	liver
5	chr6:1604000-1604800	Bivalent Enhancer	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr6:1604000-1604800	Enhancers	Esophagus	oesophagus
7	chr6:1604000-1605200	Bivalent/Poised TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr6:1604000-1605800	Bivalent Enhancer	Fetal Brain Male	brain
9	chr6:1604200-1604600	Flanking Bivalent TSS/Enh	iPS-18 Cell Line	embryonic stem cell
10	chr6:1604200-1604600	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr6:1604200-1604800	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr6:1604200-1605200	Bivalent/Poised TSS	Osteobl	bone
13	chr6:1604200-1605800	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
14	chr6:1604200-1606000	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr6:1604200-1610800	Active TSS	Aorta	Aorta
16	chr6:1604400-1604600	Flanking Bivalent TSS/Enh	H1 Cell Line	embryonic stem cell
17	chr6:1604400-1604600	Flanking Bivalent TSS/Enh	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr6:1604400-1604600	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr6:1604400-1604600	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
20	chr6:1604400-1604600	Bivalent Enhancer	Primary T killer memory cells from peripheral blood	blood
21	chr6:1604400-1604600	Flanking Bivalent TSS/Enh	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr6:1604400-1604600	Bivalent/Poised TSS	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr6:1604400-1604600	Flanking Bivalent TSS/Enh	Adipose Nuclei	Adipose
24	chr6:1604400-1604600	Flanking Bivalent TSS/Enh	Brain Anterior Caudate	brain
25	chr6:1604400-1604600	Flanking Bivalent TSS/Enh	Brain Hippocampus Middle	brain
26	chr6:1604400-1604600	Flanking Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
27	chr6:1604400-1604600	Flanking Bivalent TSS/Enh	Fetal Adrenal Gland	Adrenal Gland
28	chr6:1604400-1604600	Flanking Bivalent TSS/Enh	Fetal Intestine Large	intestine
29	chr6:1604400-1604600	Flanking Bivalent TSS/Enh	Fetal Intestine Small	intestine
30	chr6:1604400-1604600	Flanking Bivalent TSS/Enh	Fetal Muscle Trunk	muscle
31	chr6:1604400-1604600	Enhancers	Pancreas	Pancrea
32	chr6:1604400-1604600	Flanking Bivalent TSS/Enh	Rectal Mucosa Donor 29	rectum
33	chr6:1604400-1604600	Flanking Bivalent TSS/Enh	Rectal Mucosa Donor 31	rectum
34	chr6:1604400-1604600	Flanking Bivalent TSS/Enh	Rectal Smooth Muscle	rectum
35	chr6:1604400-1604600	Flanking Active TSS	Right Ventricle	heart
36	chr6:1604400-1604600	Flanking Bivalent TSS/Enh	Stomach Smooth Muscle	stomach
37	chr6:1604400-1604600	Flanking Bivalent TSS/Enh	GM12878-XiMat	blood
38	chr6:1604400-1604600	Flanking Active TSS	Hela-S3	cervix
39	chr6:1604400-1604600	Flanking Active TSS	HUVEC	blood vessel
40	chr6:1604400-1604600	Flanking Bivalent TSS/Enh	NH-A	brain
41	chr6:1604400-1604600	Bivalent Enhancer	NHDF-Ad	bronchial
42	chr6:1604400-1604800	Bivalent Enhancer	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
43	chr6:1604400-1604800	Flanking Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
44	chr6:1604400-1604800	Bivalent Enhancer	Primary neutrophils fromperipheralblood	blood
45	chr6:1604400-1604800	Bivalent Enhancer	Primary B cells from cord blood	blood
46	chr6:1604400-1604800	Bivalent Enhancer	Primary B cells from peripheral blood	blood
47	chr6:1604400-1604800	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
48	chr6:1604400-1604800	Bivalent Enhancer	Primary T helper naive cells fromperipheralblood	blood
49	chr6:1604400-1604800	Bivalent Enhancer	Primary T helper cells PMA-I stimulated	--
50	chr6:1604400-1604800	Bivalent Enhancer	Primary T helper 17 cells PMA-I stimulated	--

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